Macromolecular Structure and Function

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2017     (1)

354  —   original research
Structures of RNA Polymerase Closed and Intermediate Complexes Reveal Mechanisms of DNA Opening and Transcription Initiation.
Glyde R, Ye F, Darbari VC, Zhang N, Buck M, Zhang X.
Molecular Cell 67:1-11 (2017) – [Pubmed]

2016     (14)

353  —   original research
Synthetic beta-solenoid proteins with the fragment-free computational design of a beta-hairpin extension.
MacDonald JT, Kabasakal BV, Godding D, Kraatz S, Henderson L, Barber J, Freemont PS, Murray JW.
Proc Natl Acad Sci USA (2016) – [DOI] – [Abstract] – [Full text] – [PDF]

352  —   review article
Pseudomonas aeruginosa infection in cystic fibrosis: pathophysiological mechanisms and therapeutic approaches.
Lund-Palau H, Turnbull AR, Bush A, Bardin E, Cameron L, Soren O, Wierre-Gore N, Alton EW, Bundy JG, Connett G, Faust SN, Filloux A, Freemont P, Jones A, Khoo V, Morales S, Murphy R, Pabary R, Simbo A, Schelenz S, Takats Z, Webb J, Williams HD, Davies JC.
Expert Rev Respir Med 10:685-697 (2016) – [Pubmed]

351  —   original research
The second messenger c-di-AMP inhibits the osmolyte uptake system OpuC in Staphylococcus aureus.
Schuster CF, Bellows LE, Tosi T, Campeotto I, Corrigan RM, Freemont P, Gründling A.
Sci Signal 9:ra81 (2016) – [Pubmed]

350  —   review article
Structural biology: Baseplates in contractile machines
Filloux A, Freemont PS
Nat Microbiol (2016) – [Full text]

349  —   review article
The Foundry: the DNA synthesis and construction Foundry at Imperial College.
Chambers S, Kitney R, Freemont PS
Biochem Soc Trans 44:687-688 (2016) – [Pubmed]

348  —   original research
TssA forms a gp6-like ring attached to the type VI secretion sheath.
Planamente S, Salih O, Manoli E, Albesa-Jové D, Freemont PS, Filloux A.
EMBO J epub: (2016) – [Pubmed]

347  —   original research
Engineering control of bacterial cellulose production using a genetic toolkit and a new cellulose-producing strain
Florea M, Hagemann H, Santosa G, Abbott J, Micklem CN, Spencer-Milnes X, de Arroyo Garcia L, Paschou D, Lazenbatt C, Kong D, Chughtai H, Jensen K, Freemont PS, Kitney R, Reeve B, Ellis T
Proc Natl Acad Sci USA epub: (2016) – [Pubmed]

346  —   original research
The dimeric architecture of checkpoint kinases Mec1ATR and Tel1ATM reveal a common structural organisation
Sawicka M, Wanrooij PH, Darbari VC, Tannous E, Hailemariam S, Bose D, Makarova AV, Burgers PM, Zhang X
J Biol Chem epub: (2016) – [Pubmed]

345  —   original research
EcoFlex - A Multifunctional MoClo Kit for E. coli Synthetic Biology
Moore SJ, Lai HE, Kelwick R, Chee SM, Bell D, Polizzi KM, Freemont PS
ACS Synthetic Biology epub: (2016) – [Pubmed]

344  —   original research
A protease-based biosensor for the detection of schistosome cercariae
Webb AJ, Kelwick R, Doenhoff MJ, Kylilis N, MacDonald J, Wen KY, Mckeown C, Baldwin G, Ellis T, Jensen K, Freemont PS
Scientific Reports 6:24725 (2016) – [Pubmed]

343  —   original research
Genome sequence and plasmid transformation of the model high-yield bacterial cellulose producer Gluconacetobacter hansenii ATCC 53582
Florea M, Reeve B, Abbott J, Freemont PS, Ellis T
Scientific Reports 6:23635 (2016) – [Pubmed]

342  —   original research
Delineation of metabolic gene clusters in plant genomes by chromatin signatures
Yu N, Nützmann HW, MacDonald JT, Moore B, Field B, Berriri S, Trick M, Rosser SJ, Kumar SV, Freemont PS, Osbourn A
Nucleic Acids Res 44:2255-2265 (2016) – [Pubmed]

341  —   original research
Synergy and antagonism in regulation of recombinant human INO80 chromatin remodeling complex.
Willhoft O, Bythell-Douglas R, McCormack EA, Wigley DB.
Nucleic Acids Res. (2016) – [Pubmed]

340  —   original research
Chi hotspots trigger a conformational change in the helicase-like domain of AddAB to activate homologous recombination.
Gilhooly NS, Carrasco C, Gollnick B, Wilkinson M, Wigley DB, Moreno-Herrero F, Dillingham MS.
Nucleic Acids Res. 44:2727-41 (2016) – [Pubmed]

2015     (8)

339  —   original research
Multilevel Regulation and Translational Switches in Synthetic Biology
Kopniczky MB, Moore SJ, Freemont PS
IEEE Transactions on Biomedical Circuits and Systems 9:485-496 (2015) – [Pubmed]

338  —   original research
Structures of the RNA polymerase-σ54 reveal new and conserved regulatory strategies.
Yang Y, Darbari VC, Zhang N, Lu D, Glyde R, Wang Y-P, Winkelman JT, Gourse RL, Murakami KS, Buck M, Zhang X
Science 349:882-885 (2015) – [Pubmed] – [Abstract] – [Full text] – [PDF]

337  —   original research
The N-terminal Region of the Ubiquitin Regulatory X (UBX) Domain-containing Protein 1 (UBXD1) Modulates Interdomain Communication within the Valosin-containing Protein p97
Trusch F, Matena A, Vuk M, Koerver L, Knaevelsrud H, Freemont PS, Meyer H, Bayer P
J Biol Chem. 290:29414-29427 (2015) – [Pubmed]

336  —   original research
New quantitative approaches reveal the spatial preference of nuclear compartments in mammalian fibroblasts
Weston DJ, Russell RA, Batty E, Jensen K, Stephens DA, Adams NM, Freemont PS
J R Soc Interface 12:20140894 (2015) – [Pubmed]

335  —   original research
Mutations in RNA Polymerase Bridge Helix and Switch Regions Affect Active-Site Networks and Transcript-Assisted Hydrolysis
Zhang N, Schaefer J, Sharma A, Rayner L, Zhang X, Tuma R, Stockley P, Buck M
J Mol Biol 427:3516-3526 (2015) – [Pubmed]

334  —   original research
A Forward-Design Approach to Increase the Production of Poly-3-Hydroxybutyrate in Genetically Engineered Escherichia coli.
Kelwick R, Kopniczky M, Bower I, Chi W, Chin MH, Fan S, Pilcher J, Strutt J, Webb AJ, Jensen K, Stan GB, Kitney R, Freemont P
PLoS ONE 10:e0117202 (2015) – [Pubmed]

333  —   original research
The structural basis for enhancer-dependent assembly and activation of the AAA transcriptional activator NorR.
Bush M, Ghosh T, Sawicka M, Moal IH, Bates PA, Dixon R, Zhang X
Mol Microbiol. 95:17-30 (2015) – [Pubmed]

332  —   original research
Structural features of Chi recognition in AddAB with implications for RecBCD.
Wilkinson M, Wigley DB.
Cell Cycle 13:2812-20 (2015) – [Pubmed]

2014     (14)

331  —   review article
Developments in the tools and methodologies of synthetic biology
Kelwick R, MacDonald JT, Webb AJ, Freemont P
Front Bioeng Biotechnol 2:60 (2014) – [Pubmed]

330  —   original research
Complex Structure and Biochemical Characterization of the Staphylococcus aureus cyclic di-AMP binding Protein PstA, the Founding Member of a New Signal Transduction Protein Family.
Campeotto I, Zhang Y, Mladenov MG, Freemont PS, Gründling A
J Biol Chem. epub:2888-2901 (2014) – [Pubmed]

329  —   original research
Coevolution of the ATPase ClpV, the Sheath Proteins TssB and TssC, and the Accessory Protein TagJ/HsiE1 Distinguishes Type VI Secretion Classes.
Förster A, Planamente S, Manoli E, Lossi NS, Freemont PS, Filloux A
J Biol Chem. epub: (2014) – [Pubmed]

328  —   original research
Structure and mechanism of action of the BRCA2 breast cancer tumor suppressor
Shahid T, Soroka J, Kong EH, Malivert L, McIlwraith MJ, Pape T, West SC, Zhang X
Nat Struct Mol Biol epub: (2014) – [Pubmed]

327  —   review article
How synthetic biology will reconsider natural bioluminescence and its applications
Reeve B, Sanderson T, Ellis T, Freemont P
Adv Biochem Eng Biotechnol 145:3-30 (2014) – [Pubmed]

326  —   original research
Structural and Mechanistic Insight into the Listeria monocytogenes Two-Enzyme Lipoteichoic Acid Synthesis System
Campeotto I, Percy MG, MacDonald JT, Forster A, Freemont PS, Grundling A
J Biol Chem epub: (2014) – [Pubmed]

325  —   review article
Co-culture systems and technologies: taking synthetic biology to the next level
Goers L, Freemont P, Polizzi KM
J R Soc Interface 11:20140065 (2014) – [Pubmed]

324  —   original research
Molecular basis of nucleotide-dependent substrate engagement and remodeling by an AAA+ activator
Darbari VC, Lawton E, Lu D, Burrows PC, Wiesler S, Joly N, Zhang N, Zhang X, Buck M
Nucleic Acids Res 42:9249-9261 (2014) – [Pubmed]

323  —   original research
Mutational analysis of dimeric linkers in peri- and cytoplasmic domains of histidine kinase DctB reveals their functional roles in signal transduction
Liu J, Yang J, Wen J, Yang Y, Wei X, Zhang X, Wang YP
Open Biol 4:140023 (2014) – [Pubmed]

322  —   original research
Domain movements of the enhancer-dependent sigma factor drive DNA delivery into the RNA polymerase active site: insights from single molecule studies
Sharma A, Leach RN, Gell C, Zhang N, Burrows PC, Shepherd DA, Wigneshweraraj S, Smith DA, Zhang X, Buck M, Stockley PG, Tuma R
Nucleic Acids Res 42:5177-5190 (2014) – [Pubmed]

321  —   original research
The p97-FAF1 protein complex reveals a common mode of p97 adaptor binding
Ewens CA, Panico S, Kloppsteck P, McKeown C, Ebong IO, Robinson C, Zhang X, Freemont PS
J Biol Chem Epub: (2014) – [Pubmed]

320  —   original research
Inter-ring rotations of AAA ATPase p97 revealed by electron cryomicroscopy
Yeung HO, Förster A, Bebeacua C, Niwa H, Ewens C, McKeown C, Zhang X, Freemont PS
Open Biol 4:130142 (2014) – [Pubmed]

319  —   original research
R2oDNA Designer: Computational design of biologically-neutral synthetic DNA sequences
Casini A, Christodoulou G, Freemont PS, Baldwin GS, Ellis T, MacDonald JT
ACS Synthetic Biology Epub: (2014) – [Pubmed]

318  —   original research
Structural basis for translocation by AddAB helicase-nuclease and its arrest at χ sites.
Krajewski WW, Fu X, Wilkinson M, Cronin NB, Dillingham MS, Wigley DB.
Nature 508:416-9 (2014) – [Pubmed]

2013     (7)

317  —   review article
In vivo and in vitro characterization of σ70 constitutive promoters by real-time PCR and fluorescent measurements
Chappell J, Freemont P
Methods Mol Biol 1073:61-74 (2013) – [Pubmed]

316  —   original research
Design of a prototype flow microreactor for synthetic biology in vitro
Boehm CR, Freemont PS, Ces O
Lab Chip 13:3426-32 (2013) – [Pubmed]

315  —   original research
One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy
Casini A, MacDonald JT, De Jonghe J, Christodoulou G, Freemont PS, Baldwin GS, Ellis T
Nucleic Acids Res 42:e7 (2013) – [Pubmed]

314  —   original research
Validating a Coarse-Grained Potential Energy Function through Protein Loop Modelling
MacDonald JT, Kelley LA, Freemont PS
PLoS ONE 8:e65770 (2013) – [Pubmed]

313  —   original research
Validation of an entirely in vitro approach for rapid prototyping of DNA regulatory elements for synthetic biology
Chappell J, Jensen K, Freemont PS
Nucleic Acids Res 41:3471-81 (2013) – [Pubmed]

312  —   original research
The HsiB1C1 (TssB/TssC) complex of the Pseudomonas aeruginosa type VI secretion system forms a bacteriophage tail sheath-like structure
Lossi NS, Manoli E, Förster A, Dajani R, Pape T, Freemont P, Filloux A
J Biol Chem 288:7536-48 (2013) – [Pubmed]

311  —   review article
Bacterial DNA repair: recent insights into the mechanism of RecBCD, AddAB and AdnAB.
Wigley DB.
Nat. Rev. Microbiol. 11:9-13 (2013) – [Pubmed]

2012     (17)

310  —   review article
Transcriptional control of the main aromatic hydrocarbon efflux pump in Pseudomonas
Fillet S, Daniels C, Pini C, Krell T, Duque E, Bernal P, Segura A, Lu D, Zhang X, Ramos JL
Environ Microbiol Rep 4:158-67 (2012) – [Pubmed]

309  —   original research
Interactions between the nucleosome histone core and Arp8 in the INO80 chromatin remodeling complex
Saravanan M, Wuerges J, Bose D, McCormack EA, Cook NJ, Zhang X, Wigley DB
Proc Natl Acad Sci USA 109:20883-8 (2012) – [Pubmed]

308  —   original research
The Salmonella Kinase SteC Targets the MAP Kinase MEK to Regulate the Host Actin Cytoskeleton
Odendall C, Rolhion N, Förster A, Poh J, Lamont DJ, Liu M, Freemont PS, Catling AD, Holden DW
Cell Host Microbe 12:657-668 (2012) – [Pubmed]

307  —   original research
Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis
Lu D, Silhan J, MacDonald JT, Carpenter EP, Jensen K, Tang CM, Baldwin GS, Freemont PS
Proc Natl Acad Sci USA 109:16852-7 (2012) – [Pubmed]

306  —   original research
The archetype Pseudomonas aeruginosa proteins TssB and TagJ form a novel subcomplex in the bacterial type VI secretion system
Lossi NS, Manoli E, Simpson P, Jones C, Hui K, Dajani R, Coulthurst SJ, Freemont PS, Filloux A
Mol Microbiol 86:437-56 (2012) – [Pubmed]

305  —   review article
Synthetic biology - the state of play
Kitney R, Freemont PS
FEBS Lett 586:2029-36 (2012) – [Pubmed]

304  —   original research
Analysis of spatial point patterns in nuclear biology
Weston DJ, Adams NM, Russell RA, Stephens DA, Freemont PS
PLoS One 7:e36841 (2012) – [Pubmed]

303  —   original research
A network of enzymes involved in repair of oxidative DNA damage in Neisseria meningitidis
Nagorska K, Silhan J, Li Y, Pelicic V, Freemont PS, Baldwin GS, Tang CM
Mol Microbiol 83:1064-79 (2012) – [Pubmed]

302  —   original research
The role of the N-domain in the ATPase activity of the mammalian AAA ATPase p97/VCP
Niwa H, Ewens CA, Tsang C, Yeung HO, Zhang X, Freemont PS
J Biol Chem 278:8561-70 (2012) – [Pubmed]

301  —   book
Synthetic Biology – A Primer
Baldwin G, Bayer T, Ellis T, Dickinson R, Bart-Stan G, Polizzi K, Kitney R, Freemont PS
Imperial College Press (2012)

300  —   original research
Distinct conformations of the protein complex p97-Ufd1-Npl4 revealed by electron cryomicroscopy
Bebeacua C, Förster A, McKeown C, Meyer HH, Zhang X, Freemont PS
Proc Natl Acad Sci USA 109:1098-103 (2012) – [Pubmed]

299  —   original research
Specialization of an Exonuclease III family enzyme in the repair of 3' DNA lesions during base excision repair in the human pathogen Neisseria meningitidis
Silhan J, Nagorska K, Zhao Q, Jensen K, Freemont PS, Tang CM, Baldwin GS
Nucleic Acids Res 40:2065-75 (2012) – [Pubmed]

298  —   review article
Coupling AAA protein function to regulated gene expression
Joly N, Zhang N, Buck M, Zhang X
Biochim Biophys Acta 1823:108-16 (2012) – [Pubmed]

297  —   review article
Regulation of p97 in the Ubiquitin-Proteasome System by the UBX protein-family
Kloppsteck P, Ewens CA, Förster A, Zhang X, Freemont PS
Biochim Biophys Acta 1823:125-9 (2012) – [Pubmed]

296  —   original research
Molecular determinants responsible for recognition of the single-stranded DNA regulatory sequence, χ, by RecBCD enzyme.
Handa N, Yang L, Dillingham MS, Kobayashi I, Wigley DB, Kowalczykowski SC.
Proc. Natl. Acad. Sci. U.S.A. 109:8901-6 (2012) – [Pubmed]

295  —   original research
Alteration of χ recognition by RecBCD reveals a regulated molecular latch and suggests a channel-bypass mechanism for biological control.
Yang L, Handa N, Liu B, Dillingham MS, Wigley DB, Kowalczykowski SC.
Proc. Natl. Acad. Sci. U.S.A. 109:8907-12 (2012) – [Pubmed]

294  —   original research
Insights into Chi recognition from the structure of an AddAB-type helicase-nuclease complex.
Saikrishnan K, Yeeles JT, Gilhooly NS, Krajewski WW, Dillingham MS, Wigley DB.
EMBO J. 31:1568-78 (2012) – [Pubmed]

2011     (10)

293  —   conference proceedings
Synthetic biology–A New Generation of Biofilm Biosensors
Chappell J, Freemont PS
in The Science and Applications of Synthetic and Systems Biology, Institute of Medicine of the National Academies USA, Forum on Microbial Threats (2011)

292  —   book chapter
PML bodies and other TRIM-defined subcellular compartments
Batty E, Jensen K, Freemont PS
in TRIM/RBCC proteins (edited by Meroni G), Landes Biosciences (2011)

291  —   original research
Structure-function analysis of HsiF, a gp25-like component of the type VI secretion system, in Pseudomonas aeruginosa
Lossi NS, Dajani R, Freemont P, Filloux A
Microbiology 157:3292-305 (2011) – [Pubmed]

290  —   original research
Transcriptional regulation by the dedicated nitric oxide sensor, NorR: a route towards NO detoxification
Bush M, Ghosh T, Tucker N, Zhang X, Dixon R
Biochem Soc Trans 39:289-93 (2011) – [Pubmed]

289  —   original research
Activity map of the Escherichia coli RNA polymerase bridge helix
Jovanovic M, Burrows PC, Bose D, Cámara B, Wiesler S, Zhang X, Wigneshweraraj S, Weinzierl RO, Buck M
J Biol Chem 286:14469-79 (2011) – [Pubmed]

288  —   original research
Intramolecular signal transmission in a tetrameric repressor of the IclR family
Fillet S, Krell T, Morel B, Lu D, Zhang X, Ramos JL
Proc Natl Acad Sci USA 108:15372-7 (2011) – [Pubmed]

287  —   original research
Interaction between Nucleosome Assembly Protein 1-like family members
Attia M, Förster A, Rachez C, Freemont P, Avner P, Rogner UC
J Mol Biol 407:647-60 (2011) – [Pubmed]

286  —   review article
Computational design approaches and tools for synthetic biology
MacDonald JT, Barnes C, Kitney RI, Freemont PS, Stan GB
Integr Biol (Camb) 3:97-108 (2011) – [Pubmed]

285  —   original research
RNA polymerase and transcription elongation factor Spt4/5 complex structure
Klein BJ, Bose D, Baker KJ, Yusoff ZM, Zhang X, Murakami KS
Proc Natl Acad Sci USA 108:546-50 (2011) – [Pubmed]

284  —   book chapter
Methodology for Quantitative Analysis of 3-D Nuclear Architecture
Russell RA, Adams NM, Stephens D, Batty E, Jensen K, Freemont PS
in Advances in Nuclear Architecture (edited by Adams NM and Freemont PS), Springer (2011) – [DOI]

2010     (8)

283  —   original research
Foot-and-mouth disease virus 2C is a hexameric AAA+ protein with a coordinated ATP hydrolysis mechanism
Sweeney TR, Cisnetto V, Bose D, Bailey M, Wilson JR, Zhang X, Belsham GJ, Curry S
J Biol Chem 285:24347-59 (2010) – [Pubmed]

282  —   original research
A Novel Pyrazolo[1,5-a]pyrimidine Is a Potent Inhibitor of Cyclin-Dependent Protein Kinases 1, 2, and 9, Which Demonstrates Antitumor Effects in Human Tumor Xenografts Following Oral Administration
Heathcote DA, Patel H, Kroll SH, Hazel P, Periyasamy M, Alikian M, Kanneganti SK, Jogalekar AS, Scheiper B, Barbazanges M, Blum A, Brackow J, Siwicka A, Pace RD, Fuchter MJ, Snyder JP, Liotta DC, Freemont PS, Aboagye EO, Coombes RC, Barrett AG, Ali S
J Med Chem 53:8508-22 (2010) – [Pubmed]

281  —   original research
Crystal structure of TtgV in complex with its DNA operator reveals a general model for cooperative DNA binding of tetrameric gene regulators
Lu D, Fillet S, Meng C, Alguel Y, Kloppsteck P, Bergeron J, Krell T, Gallegos MT, Ramos J, Zhang X
Genes Dev 24:2556-65 (2010) – [Pubmed]

280  —   original research
Crystal structure of MexZ, a key repressor responsible for antibiotic resistance in Pseudomonas aeruginosa
Alguel Y, Lu D, Quade N, Sauter S, Zhang X
J Struct Biol 172:305-10 (2010) – [Pubmed]

279  —   original research
Nitric oxide-responsive interdomain regulation targets the σ54-interaction surface in the enhancer binding protein NorR
Bush M, Ghosh T, Tucker N, Zhang X, Dixon R
Mol Microbiol 77:1278-88 (2010) – [Pubmed]

278  —   review article
Mechanisms for activating bacterial RNA polymerase
Ghosh T, Bose D, Zhang X
FEMS Microbiol Rev 34:611-27 (2010) – [Pubmed]

277  —   review article
Structural and functional implications of phosphorylation and acetylation in the regulation of the AAA+ protein p97
Ewens CA, Kloppsteck P, Förster A, Zhang X, Freemont PS
Biochem Cell Biol 88:41-8 (2010) – [Pubmed]

276  —   original research
Essential roles of three enhancer sites in σ54-dependent transcription by the nitric oxide sensing regulatory protein NorR
Tucker NP, Ghosh T, Bush M, Zhang X, Dixon R
Nucleic Acids Res 38:1182 (2010) – [Pubmed]

2009     (13)

275  —   original research
TtgV represses two different promoters by recognizing different sequences
Fillet S, Vélez M, Lu D, Zhang X, Gallegos MT, Ramos JL
J Bacteriol 191:1901-9 (2009) – [Pubmed]

274  —   book chapter
Historical Introduction to SUMO Modification
Jensen K, Sternsdorf T, Freemont PS
in Sumoylation: Molecular Biology and Biochemistry (edited by Wilson VG), Taylor & Francis (2009)

273  —   original research
Functional roles of the pre-sensor I insertion sequence in an AAA+ bacterial enhancer binding protein
Burrows PC, Schumacher J, Amartey S, Ghosh T, Burgis TA, Zhang X, Nixon BT, Buck M
Mol Microbiol 73:519-33 (2009) – [Pubmed]

272  —   original research
IHF-binding sites inhibit DNA loop formation and transcription initiation
Huo YX, Zhang YT, Xiao Y, Zhang X, Buck M, Kolb A, Wang YP
Nucleic Acids Res 37:3878-86 (2009) – [Pubmed]

271  —   original research
Automated assignment in selectively methyl-labeled proteins
Xu Y, Liu M, Simpson PJ, Isaacson R, Cota E, Marchant J, Yang D, Zhang X, Freemont P, Matthews S
J Am Chem Soc 131:9480-1 (2009) – [Pubmed]

270  —   original research
Coupling sigma factor conformation to RNA polymerase reorganisation for DNA melting
Burrows PC, Joly N, Cannon WV, Cámara BP, Rappas M, Zhang X, Dawes K, Nixon BT, Wigneshweraraj SR, Buck M
J Mol Biol 387:306-19 (2009) – [Pubmed]

269  —   review article
Opportunities for microfluidic technologies in synthetic biology
Gulati S, Rouilly V, Niu X, Chappell J, Kitney RI, Edel JB, Freemont PS, deMello AJ
J R Soc Interface 6:S493-506 (2009) – [DOI]

268  —   original research
Segmentation of fluorescence microscopy images for quantitative analysis of cell nuclear architecture
Russell RA, Adams NM, Stephens DA, Batty E, Jensen K, Freemont PS
Biophys J 96:3379-3389 (2009) – [Pubmed]

267  —   review article
PML nuclear bodies and their spatial relationships in the mammalian cell nucleus
Batty E, Jensen K, Freemont P
Front Biosci 14:1182-96 (2009) – [Pubmed]

266  —   original research
Structure-based mechanism of lipoteichoic acid synthesis by Staphylococcus aureus LtaS
Lu D, Wörmann ME, Zhang X, Schneewind O, Gründling A, Freemont PS
Proc Natl Acad Sci USA 106:1584-9 (2009) – [Pubmed]

265  —   original research
The RecB nuclease domain binds to RecA-DNA filaments: implications for filament loading.
Lucarelli D, Wang YA, Galkin VE, Yu X, Wigley DB, Egelman EH.
J. Mol. Biol. 391:269-74 (2009) – [Pubmed]

264  —   original research
Mechanistic basis of 5'-3' translocation in SF1B helicases.
Saikrishnan K, Powell B, Cook NJ, Webb MR, Wigley DB.
Cell 137:849-59 (2009) – [Pubmed]

263  —   review article
ORC proteins: marking the start.
Wigley DB.
Curr. Opin. Struct. Biol. 19:72-8 (2009) – [Pubmed]

2008     (13)

262  —   original research
Organisation of an activator-bound RNA polymerase holoenzyme
Bose D, Pape T, Burrows PC, Rappas M, Wigneshweraraj SR, Buck M, Zhang X
Molecular Cell 32:337-346 (2008) – [Pubmed]

261  —   original research
The glutamate switch provides a link between ATPase activity and ligand binding in AAA+ proteins
Zhang X, Wigley DB
Nat Struct Mol Biol 15:1223-7 (2008) – [Pubmed]

260  —   review article
AAA proteins and the life process
Förster A, Freemont PS, Mayer RJ
Biochem Soc Trans 36:59-61 (2008) – [Pubmed]

259  —   original research
Analysis of nucleotide binding to P97 reveals the properties of a tandem AAA hexameric ATPase
Briggs LC, Baldwin GS, Miyata N, Kondo H, Zhang X, Freemont PS
J Biol Chem 283:13745-52 (2008) – [Pubmed]

258  —   review article
Modus operandi of the bacterial RNA polymerase containing the sigma54 promoter-specificity factor
Wigneshweraraj S, Bose D, Burrows PC, Joly N, Schumacher J, Rappas M, Pape T, Zhang X, Stockley P, Severinov K, Buck M
Mol Microbiol 68:538-46 (2008) – [Pubmed]

257  —   review article
Dissecting the ATP hydrolysis pathway of bacterial enhancer-binding proteins
Bose D, Joly N, Pape T, Rappas M, Schumacher J, Buck M, Zhang X
Biochem Soc Trans 36:83-8 (2008) – [Pubmed]

256  —   review article
Visualizing the organization and reorganization of transcription complexes for gene expression
Burrows PC, Wigneshweraraj S, Bose D, Joly N, Schumacher J, Rappas M, Pape T, Stockley PG, Zhang X, Buck M
Biochem Soc Trans 36:776-9 (2008) – [Pubmed]

255  —   review article
Insights into adaptor binding to the AAA protein p97
Yeung HO, Kloppsteck P, Niwa H, Isaacson RL, Matthews S, Zhang X, Freemont PS
Biochem Soc Trans 36:62-7 (2008) – [Pubmed]

254  —   original research
Trapping of a transcription complex using a new nucleotide analogue:  AMP aluminium fluoride
Joly N, Rappas M, Buck M, Zhang X
J Mol Biol 375:1206-11 (2008) – [Pubmed]

253  —   original research
Mechanism of homotropic control to coordinate hydrolysis in a hexameric AAA+ ring ATPase
Schumacher J, Joly N, Claeys-Bouuaert IL, Aziz SA, Rappas M, Zhang X, Buck M
J Mol Biol 381:1-12 (2008) – [Pubmed]

252  —   original research
SteC is a Salmonella kinase required for SPI-2-dependent F-actin remodelling
Poh J, Odendall C, Spanos A, Boyle C, Liu M, Freemont P, Holden DW
Cell Microbiol 10:20-30 (2008) – [Pubmed]

251  —   original research
DNA binding to RecD: role of the 1B domain in SF1B helicase activity.
Saikrishnan K, Griffiths SP, Cook N, Court R, Wigley DB.
EMBO J. 27:2222-9 (2008) – [Pubmed]

250  —   original research
RecBCD: the supercar of DNA repair.
Wigley DB.
Cell 131:651-3 (2008) – [Pubmed]

2007     (16)

249  —   original research
Crystal structures of multidrug binding protein TtgR in complex with antibiotics and plant antimicrobials
Alguel Y, Meng C, Terán W, Krell T, Ramos JL, Gallegos MT, Zhang X
J Mol Biol 369:829-40 (2007) – [Pubmed]

248  —   original research
Structural insights into the p97-Ufd1-Npl4 complex
Pye V, Beuron F, Keetch C, McKeown C, Robinson CV, Zhang X, Freemont P
Proc Natl Acad Sci USA 104:467-72 (2007) – [Pubmed]

247  —   review article
Bacterial enhancer-binding proteins:  Unlocking σ54-dependent gene transcription
Rappas M, Bose D, Zhang X
Curr Opin Struct Biol 17:110-6 (2007) – [Pubmed]

246  —   original research
Coupling nucleotide hydrolysis to transcription activation performance in a bacterial enhancer binding protein
Joly N, Rappas M, Wigneshweraraj SR, Zhang X, Buck M
Mol Microbiol 66:583-95 (2007) – [Pubmed]

245  —   original research
Sensor I threonine of the AAA+ ATPase transcriptional activator PspF is involved in coupling nucleotide triphosphate hydrolysis to the restructuring of σ 54-RNA polymerase
Schumacher J, Joly N, Rappas M, Bradley D, Wigneshweraraj SR, Zhang X, Buck M
J Biol Chem 282:9825-33 (2007) – [Pubmed]

244  —   original research
A new labeling method for methyl transverse relaxation-optimized spectroscopy NMR spectra of alanine residues
Isaacson R, Simpson P, Liu M, Cota E, Zhang X, Freemont P, Matthews S
J Am Chem Soc 129:15428-9 (2007) – [Pubmed]

243  —   original research
Detailed structural insights into the p97-Npl4-Ufd1 interface
Isaacson RL, Pye VE, Simpson P, Meyer HH, Zhang X, Freemont PS, Matthews S
J Biol Chem 282:21361-9 (2007) – [Pubmed]

242  —   original research
Cd36, a class B scavenger receptor, functions as a monomer to bind acetylated and oxidized low-density lipoproteins
Martin CA, Longman E, Wooding C, Hoosdally SJ, Ali S, Aitman TJ, Gutmann DA, Freemont PS, Byrne B, Linton KJ
Protein Sci 16:2531-41 (2007) – [Pubmed]

241  —   original research
Quantitative analysis of cell nucleus organisation
Shiels C, Adams NM, Islam SA, Stephens DA, Freemont PS
PLoS Comput Biol 3:e138 (2007) – [Pubmed]

240  —   original research
Different quaternary structures of human RECQ1 are associated with its dual enzymatic activity
Muzzolini L, Beuron F, Patwardhan A, Popuri V, Cui S, Niccolini B, Rappas M, Freemont PS, Vindigni A
PLoS Biol 5:e20 (2007) – [Pubmed]

239  —   original research
Breast cancer associated transcriptional repressor PLU-1/JARID1B interacts directly with histone deacetylases
Barrett A, Santangelo S, Tan K, Catchpole S, Roberts K, Spencer-Dene B, Hall D, Scibetta A, Burchell J, Verdin E, Freemont P, Taylor-Papadimitriou J
Int J Cancer 121:265-75 (2007) – [Pubmed]

238  —   original research
SseL, a Salmonella deubiquitinase required for macrophage killing and virulence
Rytkönen A, Poh J, Garmendia J, Boyle C, Thompson A, Liu M, Freemont P, Hinton JC, Holden DW
Proc Natl Acad Sci USA 104:3502-7 (2007) – [Pubmed]

237  —   original research
AP endonuclease paralogues with distinct activities in DNA repair and bacterial pathogenesis
Carpenter EP, Corbett A, Thomson H, Adacha J, Jensen K, Bergeron J, Kasampalidis I, Exley R, Winterbotham M, Tang C, Baldwin GS, Freemont P
EMBO J 26:1363-72 (2007) – [Pubmed]

236  —   original research
Structural basis of DNA replication origin recognition by an ORC protein.
Gaudier M, Schuwirth BS, Westcott SL, Wigley DB.
Science 317:1213-6 (2007) – [Pubmed]

235  —   review article
Structure and mechanism of helicases and nucleic acid translocases.
Singleton MR, Dillingham MS, Wigley DB.
Annu. Rev. Biochem. 76:23-50 (2007) – [Pubmed]

234  —   original research
Biochemical analysis of a DNA replication origin in the archaeon Aeropyrum pernix.
Grainge I, Gaudier M, Schuwirth BS, Westcott SL, Sandall J, Atanassova N, Wigley DB.
J. Mol. Biol. 363:355-69 (2007) – [Pubmed]

2006     (14)

233  —   book chapter
p97 and Ubiquitin : A complex story
Briggs LC, Dreveny I, Pye VE, Beuron F, Mckeown C, Zhang X, Freemont PS
in Protein Degradation, Vol. 3: Cell Biology of the Ubiquitin-Proteasome System (edited by Ciechanover A, Rechsteiner M, Mayer RJ), Verlag Chemie (2006)

232  —   original research
Conformational changes in the AAA ATPase p97-p47 adaptor complex
Beuron F, Dreveny I, Yuan X, Pye VE, Mckeown C, Briggs LC, Cliff MJ, Kaneko Y, Wallis R, Isaacson EL, Ladbury JE, Matthews SJ, Kondo H, Zhang X, Freemont PS
EMBO J 25:1967-76 (2006) – [Pubmed]

231  —   original research
Structural basis of nucleotide-driven conformational changes in the AAA+ domain of transcriptional activator PspF
Rappas M, Schumacher J, Niwa H, Buck M, Zhang X
J Mol Biol 357:481-92 (2006) – [Pubmed]

230  —   original research
A second paradigm for gene activation in bacteria
Buck M, Bose D, Burrows P, Cannon W, Joly N, Pape T, Rappas M, Schumacher J, Wigneshweraraj S, Zhang X
Biochem Soc Trans 34:1067-71 (2006) – [Pubmed]

229  —   original research
p37 is a p97 adaptor required for Golgi and ER biogenesis in interphase and at the end of mitosis
Uchiyama K, Totsukawa G, Puhka M, Kaneko Y, Jokitalo E, Dreveny I, Beuron F, Zhang X, Freemont P, Kondo H
Dev Cell 11:755-7 (2006) – [Pubmed]

228  —   review article
Going through the motions:  The ATPase cycle of p97
Pye VE, Dreveny I, Briggs LC, Sands C, Beuron F, Zhang X, Freemont PS
J Struct Biol 156:12-28 (2006) – [Pubmed]

227  —   review article
Structures and organisation of AAA+ enhancer binding proteins in transcriptional activation
Schumacher J, Joly N, Rappas M, Zhang X, Buck M
J Struct Biol 156:190-9 (2006) – [Pubmed]

226  —   original research
Structure of the whole cytosolic region of ATP-dependent protease FtsH
Suno R, Niwa H, Tsuchiya D, Zhang X, Yoshida M, Morikawa K
Mol Cell 22:575-85 (2006) – [Pubmed]

225  —   original research
Protein-induced DNA bending clarifies the architectural organization of the σ54-dependent glnAp2 promoter
Huo Y, Tian Z, Rappas M, Wen J, Chen Y, You C, Zhang X, Buck M, Wang Y, Kolb A
Mol Microbiol 59:168-80 (2006) – [Pubmed]

224  —   original research
The transcriptional regulator CBP has defined spatial associations within interphase nuclei
McManus KJ, Stephens DA, Adams NM, Islam SA, Freemont PS, Hendzel MJ
PLoS Comput Biol 2:e139 (2006) – [Pubmed]

223  —   original research
Promyelocytic leukemia nuclear bodies associate with transcriptionally active genomic regions
Wang J, Shiels C, Sasieni P, Wu PJ, Islam SA, Freemont PS, Sheer D
J Cell Biol 164:515-26 (2006) – [Pubmed]

222  —   original research
CeBRC-2 stimulates D-loop formation by RAD-51 and promotes DNA single-strand annealing.
Petalcorin MI, Sandall J, Wigley DB, Boulton SJ.
J. Mol. Biol. 361:231-42 (2006) – [Pubmed]

221  —   original research
Communication between subunits within an archaeal clamp-loader complex.
Seybert A, Singleton MR, Cook N, Hall DR, Wigley DB.
EMBO J. 25:2209-18 (2006) – [Pubmed]

220  —   original research
Pumps, paradoxes and ploughshares: mechanism of the MCM2-7 DNA helicase.
Takahashi TS, Wigley DB, Walter JC.
Trends Biochem. Sci. 30:437-44 (2006) – [Pubmed]

2005     (10)

219  —   original research
Structural insights into the activity of enhancer-binding protein
Rappas M, Schumacher J, Beuron F, Niwa H, Bordes P, Wigneshweraraj S, Keetch CA, Robinson CV, Buck M, Zhang X
Science 307:1972-5 (2005) – [Pubmed]

218  —   review article
The second paradigm for activation of transcription
Wigneshweraraj SR, Burrows PC, Bordes P, Schumacher J, Rappas M, Finn RD, Cannon WV, Zhang X, Buck M
Prog Nucleic Acid Res Mol Biol 79:339-69 (2005) – [Pubmed]

217  —   original research
Multifunctional roles of the conserved Arg residues in the second region of homology of p97/valosin-containing protein
Wang Q, Song C, Irizarry L, Dai R, Zhang X, Li C
J Biol Chem 280:40515-23 (2005) – [Pubmed]

216  —   review article
The TetR family of transcriptional repressors
Ramos JR, Martínez-Bueno M, Molina-Henares AJ, Terán W, Watanabe K, Zhang X, Gallegos MT, Brennan R, Tobes R
Microbiol Mol Biol Rev 69:326-56 (2005) – [Pubmed]

215  —   original research
The multidrug efflux regulator TtgV recognizes a wide range of structurally different effectors in solution and complexed with target DNA:  Evidence from isothermal titration calorimetry
Guazzaroni ME, Krell T, Felipe A, Ruiz R, Meng C, Zhang X, Gallegos MT, Ramos JL
J Biol Chem 280:20887-93 (2005) – [Pubmed]

214  —   original research
Isolation of a small molecule inhibitor of DNA base excision repair
Madhusudan S, Smart F, Shrimpton P, Parsons JL, Gardiner L, Houlbrook S, Talbot DC, Hammonds T, Freemont PS, Sternberg MJ, Dianov GL, Hickson ID
Nucleic Acids Res 33:4711-24 (2005) – [Pubmed]

213  —   original research
Distinct roles for ATP binding and hydrolysis at individual subunits of an archaeal clamp loader.
Seybert A, Wigley DB.
EMBO J. 23:1360-71 (2005) – [Pubmed]

212  —   original research
Crystallization of the RNA guanylyltransferase of Chlorella virus PBCV-1.
Doherty AJ, Håkansson K, Ho CK, Shuman S, Wigley DB.
Acta Crystallogr. D Biol. Crystallogr. 53:482-4 (2005) – [Pubmed]

211  —   original research
Crystallization and preliminary crystallographic analysis of the DNA gyrase B protein from B. stearothermophilus.
Tsai FT, Subramanya HS, Brannigan JA, Wilkinson AJ, Wigley DB.
Acta Crystallogr. D Biol. Crystallogr. 52:1216-8 (2005) – [Pubmed]

210  —   original research
Preliminary crystallographic analysis of the ParE subunit of Escherichia coli topoisomerase IV.
Subramanya HS, Peng H, Marians KJ, Wigley DB.
Acta Crystallogr. D Biol. Crystallogr. 52:579-80 (2005) – [Pubmed]

2004     (12)

209  —   review article
Mechanisms of ATPases – a multi-disciplinary approach
Rappas M, Niwa H, Zhang X
Curr Protein Pept Sci 5:89-105 (2004) – [Pubmed]

208  —   original research
Structural Basis of the interaction between the AAA ATPase p97/VCP and its adaptor protein p47
Dreveny I, Kondo H, Uchiyama K, Shaw A, Zhang X, Freemont PS
EMBO J 23:1030-9 (2004) – [Pubmed]

207  —   original research
Structure, dynamics and interactions of p47, a major adaptor of the AAA ATPase, p97
Yuan X, Simpson P, McKeown C, Kondo H, Uchiyama K, Wallis R, Dreveny I, Keetch C, Zhang X, Robinson C, Freemont P, Matthews S
EMBO J 23:1463-73 (2004) – [Pubmed]

206  —   review article
p97 and close encounters of every kind:  A brief review
Dreveny I, Pye VE, Beuron F, Briggs LC, Isaacson RL, Matthews SJ, McKeown C, Yuan X, Zhang X, Freemont PS
Biochem Soc Trans 32:715-20 (2004) – [Pubmed]

205  —   original research
ATP-dependent transcriptional activation by bacterial PspF AAA+ protein
Schumacher J, Zhang X, Jones S, Bordes P, Buck M
J Mol Biol 338:863-75 (2004) – [Pubmed]

204  —   original research
Complete backbone resonance assignments of p47:  The 41kDa adaptor protein of the AAA ATPase p97
Yuan X, Simpson P, Kondo H, McKeown C, Dreveny I, Zhang X, Freemont PS, Matthews S
J Biomol NMR 28:309-10 (2004) – [Pubmed]

203  —   original research
TtgV bound to a complex operator site represses transcription of the promoter for the multidrug and solvent extrusion TtgGHI pump
Guazzaroni ME, Terán W, Zhang X, Gallegos MT, Ramos JL
J Bacteriol 186:2921-7 (2004) – [Pubmed]

202  —   original research
A link between sequence conservation and domain motion within the AAA+ family
Smith GR, Contreras-Moreira B, Zhang X, Bates PA
J Struct Biol 146:189-204 (2004) – [Pubmed]

201  —   original research
σ54-dependent transcription activator phage shock protein F of Escherichia coli:  A fragmentation approach to identify sequences that contribute to self-association
Bordes P, Wigneshweraraj SR, Zhang X, Buck M
Biochem J 378:735-44 (2004) – [Pubmed]

200  —   original research
Crystal structure of RecBCD enzyme reveals a machine for processing DNA breaks.
Singleton MR, Dillingham MS, Gaudier M, Kowalczykowski SC, Wigley DB.
Nature 432:187-93 (2004) – [Pubmed]

199  —   original research
Conformational changes induced by nucleotide binding in Cdc6/ORC from Aeropyrum pernix.
Singleton MR, Morales R, Grainge I, Cook N, Isupov MN, Wigley DB.
J. Mol. Biol. 343:547-57 (2004) – [Pubmed]

198  —   original research
Biochemical analysis of components of the pre-replication complex of Archaeoglobus fulgidus.
Grainge I, Scaife S, Wigley DB.
Nucleic Acids Res. 31:4888-98 (2004) – [Pubmed]

2003     (8)

197  —   original research
Motions and negative cooperativity between p97 domains revealed by cryo-electron microscopy and quantised elastic deformational model
Beuron F, Flynn TC, Ma J, Kondo H, Zhang X, Freemont PS
J Mol Biol 327:619-29 (2003) – [Pubmed]

196  —   original research
The crystal structure of murine p97/VCP at 3.6Å
Huyton T, Pye VE, Briggs LC, Flynn TC, Beuron F, Kondo H, Ma J, Zhang X, Freemont PS
J Struct Biol 144:337-48 (2003) – [Pubmed]

195  —   original research
The localization and phosphorylation of p47 are important for Golgi disassembly-assembly during the cell cycle
Uchiyama K, Jokitalo E, Lindman M, Jackman M, Kano F, Murata M, Zhang X, Kondo H
J Cell Biol 161:1067-79 (2003) – [Pubmed]

194  —   original research
The ATP hydrolyzing transcription activator phage shock protein F of Escherichia coli:  Identifying a surface that binds σ 54
Bordes P, Wigneshweraraj SR, Schumacher J, Zhang X, Chaney M, Buck M
Proc Natl Acad Sci USA 100:2278-83 (2003) – [Pubmed]

193  —   original research
Mutations in a Sar1 GTPase of COPII vesicles are associated with lipid absorption disorders
Jones B, Jones EL, Bonney SA, Patel HN, Mensenkamp AR, Eichenbaum-Voline S, Rudling M, Myrdal U, Annesi G, Naik S, Meadows N, Quattrone A, Islam SA, Naoumova RP, Angelin B, Infante R, Levy E, Roy CC, Freemont PS, Scott J, Shoulders CC
Nat Genet 34:29-31 (2003) – [Pubmed]

192  —   review article
Sternsdorf T, Jensen K, Freemont PS
Curr Biol 13:R258-9 (2003) – [Pubmed]

191  —   original research
Human PLU-1 has transcriptional repression properties and interacts with the developmental transcription factors BF-1 and PAX9
Tan K, Shaw AL, Madsen B, Jensen K, Taylor-Papadimitriou J, Freemont PS
J Biol Chem 278:20507-13 (2003) – [Pubmed]

190  —   review article
Multiple roles for ATP hydrolysis in nucleic acid modifying enzymes.
Singleton MR, Wigley DB.
EMBO J. 22:4579-83 (2003) – [Pubmed]

2002     (13)

189  —   original research
VCIP135, a novel essential factor for p97/p47-mediated membrane fusion, is required for Golgi and ER assembly in vivo
Uchiyama K, Jokitalo E, Kano F, Murata M, Zhang X, Canas B, Newman R, Rabouille C, Pappin D, Freemont P, Kondo H
J Cell Biol 159:855-66 (2002) – [Pubmed]

188  —   review article
Mechanochemical ATPases and transcriptional activation
Zhang X, Chaney M, Wigneshweraraj SR, Schumacher J, Bordes P, Cannon W, Buck M
Mol Microbiol 45:895-903 (2002) – [Pubmed]

187  —   review article
Machinery of protein folding and unfolding
Zhang X, Beuron F, Freemont PS
Curr Opin Struct Biol 12:231-8 (2002) – [Pubmed]

186  —   original research
Characterisation and developmental expression of mouse Plu-1, a homologue of a human nuclear protein (PLU-1) which is specifically up-regulated in breast cancer
Madsen B, Spencer-Dene B, Poulsom R, Hall D, Lu PJ, Scott K, Shaw AT, Burchell JM, Freemont P, Taylor-Papadimitriou J
Mech Dev 119:S239-46 (2002) – [Pubmed]

185  —   original research
Two nonconsensus sites in the Epstein-Barr virus oncoprotein EBNA3A cooperate to bind the co-repressor carboxyl-terminal-binding protein (CtBP)
Hickabottom M, Parker GA, Freemont P, Crook T, Allday MJ
J Biol Chem 277:47197-204 (2002) – [Pubmed]

184  —   original research
Biochemical characterisation of the clamp/clamp loader proteins from the euryarchaeon Archaeoglobus fulgidus.
Seybert A, Scott DJ, Scaife S, Singleton MR, Wigley DB.
Nucleic Acids Res. 30:4329-38 (2002) – [Pubmed]

183  —   original research
Structure of the single-strand annealing domain of human RAD52 protein.
Singleton MR, Wentzell LM, Liu Y, West SC, Wigley DB.
Proc. Natl. Acad. Sci. U.S.A. 99:13492-7 (2002) – [Pubmed]

182  —   original research
Site-directed mutagenesis reveals roles for conserved amino acid residues in the hexameric DNA helicase DnaB from Bacillus stearothermophilus.
Soultanas P, Wigley DB.
Nucleic Acids Res. 30:4051-60 (2002) – [Pubmed]

181  —   original research
The beta-propeller protein YxaL increases the processivity of the PcrA helicase.
Noirot-Gros MF, Soultanas P, Wigley DB, Ehrlich SD, Noirot P, Petit MA.
Mol. Genet. Genomics 267:391-400 (2002) – [Pubmed]

180  —   original research
Restart of DNA replication in Gram-positive bacteria: functional characterisation of the Bacillus subtilis PriA initiator.
Polard P, Marsin S, McGovern S, Velten M, Wigley DB, Ehrlich SD, Bruand C.
Nucleic Acids Res. 30:1593-605 (2002) – [Pubmed]

179  —   review article
Modularity and specialization in superfamily 1 and 2 helicases.
Singleton MR, Wigley DB.
J. Bacteriol. 184:1819-26 (2002) – [Pubmed]

178  —   original research
Direct measurement of single-stranded DNA translocation by PcrA helicase using the fluorescent base analogue 2-aminopurine.
Dillingham MS, Wigley DB, Webb MR.
Biochemistry 41:643-51 (2002) – [Pubmed]

177  —   original research
RadA protein from Archaeoglobus fulgidus forms rings, nucleoprotein filaments and catalyses homologous recombination.
McIlwraith MJ, Hall DR, Stasiak AZ, Stasiak A, Wigley DB, West SC.
Nucleic Acids Res. 29:4509-17 (2002) – [Pubmed]

2001     (11)

176  —   book chapter
RING domains
Borden KLB, Freemont PS
in Encyclopedia of Molecular Medicine, Wiley Interscience (2001)

175  —   original research
Solution structure and interaction surface of the C-terminal domain from p47:  A major p97-cofactor involved in SNARE disassembly
Yuan X, Shaw A, Zhang X, Kondo H, Lally J, Freemont PS, Matthews S
J Mol Biol 311:255-63 (2001) – [Pubmed]

174  —   original research
BRCT domain interactions in the heterodimeric DNA repair protein XRCC1-DNA ligase III
Dulic A, Bates P, Zhang X, Freemont PS, Lindahl T, Barnes D
Biochemistry 40:5906-13 (2001) – [Pubmed]

173  —   original research
PML bodies associate specifically with the MHC gene cluster in interphase nuclei
Shiels C, Islam SA, Vatcheva R, Sasieni P, Sternberg MJ, Freemont PS, Sheer D
J Cell Sci 114:3705-16 (2001) – [Pubmed]

172  —   review article
PML protein isoforms and the RBCC/TRIM motif
Jensen K, Shiels C, Freemont PS
Oncogene 20:7223-33 (2001) – [Pubmed]

171  —   original research
High resolution crystal structures of T4 phage β-glucosyltransferase: induced fit and effect of substrate and metal binding
Moréra S, Larivière L, Kurzeck J, Aschke-Sonnenborn U, Freemont PS, Janin J, Rüger W
J Mol Biol 311:569-77 (2001) – [Pubmed]

170  —   original research
Role of promyelocytic leukemia (PML) sumolation in nuclear body formation, 11S proteasome recruitment, and As2O3-induced PML or PML/retinoic acid receptor α degradation
Lallemand-Breitenbach V, Zhu J, Puvion F, Koken M, Honoré N, Doubeikovsky A, Duprez E, Pandolfi PP, Puvion E, Freemont P, de Thé H
J Exp Med 193:1361-71 (2001) – [Pubmed]

169  —   original research
Crystallization and preliminary X-ray analysis of RecG, a replication-fork reversal helicase from Thermotoga maritima complexed with a three-way DNA junction.
Singleton MR, Scaife S, Raven ND, Wigley DB.
Acta Crystallogr. D Biol. Crystallogr. 57:1695-6 (2001) – [Pubmed]

168  —   original research
Structural analysis of DNA replication fork reversal by RecG.
Singleton MR, Scaife S, Wigley DB.
Cell 107:79-89 (2001) – [Pubmed]

167  —   original research
Defining the roles of individual residues in the single-stranded DNA binding site of PcrA helicase.
Dillingham MS, Soultanas P, Wiley P, Webb MR, Wigley DB.
Proc. Natl. Acad. Sci. U.S.A. 98:8381-7 (2001) – [Pubmed]

166  —   review article
Unwinding the 'Gordian knot' of helicase action.
Soultanas P, Wigley DB.
Trends Biochem. Sci. 26:47-54 (2001) – [Pubmed]

2000     (15)

165  —   original research
Structure of the AAA ATPase p97
Zhang X, Shaw A, Bates P, Newman R, Gowen B, Orlova E, Gorman M, Kondo H, Dokurno P, Lally J, Leonard G, Meyer H, van Heel M, Freemont PS
Molecular Cell 6:1473-84 (2000) – [Pubmed]

164  —   review article
The BRCA1 C-terminal domain:  Structure and function
Huyton T, Bates PA, Zhang X, Sternberg MJ, Freemont PS
Mutat Res 460:319-32 (2000) – [Pubmed]

163  —   original research
Substitution of Asp-210 in HAP1 (APE/Ref-1) eliminates endonuclease activity but stabilises substrate binding
Rothwell DG, Hang B, Gorman MA, Freemont PS, Singer B, Hickson ID
Nucleic Acids Res 28:2207-13 (2000) – [Pubmed]

162  —   original research
HPC3 is a new human polycomb orthologue that interacts and associates with RING1 and Bmi1 and has transcriptional repression properties
Bárdos JI, Saurin AJ, Tissot C, Duprez E, Freemont PS
J Biol Chem 275:28785-92 (2000) – [Pubmed]

161  —   original research
Role of SUMO-1-modified PML in nuclear body formation
Zhong S, Müller S, Ronchetti S, Freemont PS, Dejean A, Pandolfi PP
Blood 95:2748-52 (2000) – [Pubmed]

160  —   review article
RING for destruction?
Freemont PS
Curr Biol 10:R84-7 (2000) – [Pubmed]

159  —   original research
Biochemical analyses of the AF10 protein:  The extended LAP/PHD-finger mediates oligomerisation
Linder B, Newman R, Jones LK, Debernardi S, Young BD, Freemont P, Verrijzer CP, Saha V
J Mol Biol 299:369-78 (2000) – [Pubmed]

158  —   review article
DNA ligases in the repair and replication of DNA.
Timson DJ, Singleton MR, Wigley DB.
Mutat. Res. 460:301-18 (2000) – [Pubmed]

157  —   original research
Uncoupling DNA translocation and helicase activity in PcrA: direct evidence for an active mechanism.
Soultanas P, Dillingham MS, Wiley P, Webb MR, Wigley DB.
EMBO J. 19:3799-810 (2000) – [Pubmed]

156  —   original research
Crystal structure of T7 gene 4 ring helicase indicates a mechanism for sequential hydrolysis of nucleotides.
Singleton MR, Sawaya MR, Ellenberger T, Wigley DB.
Cell 101:589-600 (2000) – [Pubmed]

155  —   review article
DNA helicases: one small step for PcrA, one giant leap for RecBC?
Wigley DB.
Curr. Biol. 10:R444-6 (2000) – [Pubmed]

154  —   original research
Structure of the zinc-binding domain of Bacillus stearothermophilus DNA primase.
Pan H, Wigley DB.
Structure 8:231-9 (2000) – [Pubmed]

153  —   review article
DNA helicases: 'inching forward'.
Soultanas P, Wigley DB.
Curr. Opin. Struct. Biol. 10:124-8 (2000) – [Pubmed]

152  —   original research
Demonstration of unidirectional single-stranded DNA translocation by PcrA helicase: measurement of step size and translocation speed.
Dillingham MS, Wigley DB, Webb MR.
Biochemistry 39:205-12 (2000) – [Pubmed]

151  —   original research
Mapping protein-protein interactions within a stable complex of DNA primase and DnaB helicase from Bacillus stearothermophilus.
Bird LE, Pan H, Soultanas P, Wigley DB.
Biochemistry 39:171-82 (2000) – [Pubmed]

1999     (21)

150  —   original research
X-ray crystallographic determination of the structure of the influenza C virus haemagglutinin-esterase-fusion glycoprotein
Zhang X, Rosenthal PB, Formanowski F, Fitz W, Wong CH, Meier-Ewert H, Skehel JJ, Wiley DC
Acta Crystallogr D Biol Crystallogr 55:945-61 (1999) – [Pubmed]

149  —   original research
T4 phage β-glucosyltransferase: substrate binding and proposed catalytic mechanism
Moréra S, Imberty A, Aschke-Sonnenborn U, Rüger W, Freemont PS
J Mol Biol 292:717-30 (1999) – [Pubmed]

148  —   original research
Oligomeric ring structure of the Bloom's syndrome helicase
Karow JK, Newman RH, Freemont PS, Hickson ID
Curr Biol 9:597-600 (1999) – [Pubmed]

147  —   original research
SSX and the synovial-sarcoma-specific chimaeric protein SYT-SSX co-localize with the human Polycomb group complex
Soulez M, Saurin AJ, Freemont PS, Knight JC
Oncogene 18:2739-46 (1999) – [Pubmed]

146  —   original research
SUMO-1 modification of the acute promyelocytic leukaemia protein PML:  Implications for nuclear localisation
Duprez E, Saurin AJ, Desterro JM, Lallemand-Breitenbach V, Howe K, Boddy MN, Solomon E, de Thé H, Hay RT, Freemont PS
J Cell Sci 112:381-93 (1999) – [Pubmed]

145  —   review article
Protein-nucleic acid recognition and interactions
Vrielink A, Freemont PS
Principles in Medical Biology 5:85-115 (1999)

144  —   original research
An NSF function distinct from ATPase-dependent SNARE disassembly is essential for Golgi membrane fusion
Müller JM, Rabouille C, Newman R, Shorter J, Freemont P, Schiavo G, Warren G, Shima DT
Nat Cell Biol 1:335-40 (1999) – [Pubmed]

143  —   original research
Fold recognition study of α3-galactosyltransferase and molecular modeling of the nucleotide sugar-binding domain
Imberty A, Monier C, Bettler E, Moréra S, Freemont P, Sippl M, Flöckner H, Rüger W, Breton C
Glycobiology 9:713-22 (1999) – [Pubmed]

142  —   original research
A novel gene (PLU-1) containing highly conserved putative DNA/chromatin binding motifs is specifically up-regulated in breast cancer
Lu PJ, Sundquist K, Baeckstrom D, Poulsom R, Hanby A, Meier-Ewert S, Jones T, Mitchell M, Pitha-Rowe P, Freemont P, Taylor-Papadimitriou J
J Biol Chem 274:15633-45 (1999) – [Pubmed]

141  —   original research
Identification of the t(15;17) in AML FAB types other than M3:  Evaluation of the role of molecular screening for the PML/RARalpha rearrangement in newly diagnosed AML.  The Medical Research Council (MRC) Adult Leukaemia Working Party
Allford S, Grimwade D, Langabeer S, Duprez E, Saurin A, Chatters S, Walker H, Roberts P, Rogers J, Bain B, Patterson K, McKernan A, Freemont P, Solomon E, Burnett A, Goldstone A, Linch D
Br J Haematol 105:198-207 (1999) – [Pubmed]

140  —   original research
Isolation, sequencing and expression of RED, a novel human gene encoding an acidic-basic dipeptide repeat
Assier E, Bouzinba-Segard H, Stolzenberg MC, Stephens R, Bardos J, Freemont P, Charron D, Trowsdale J, Rich T
Gene 230:145-54 (1999) – [Pubmed]

139  —   original research
Site-directed mutagenesis of motif III in PcrA helicase reveals a role in coupling ATP hydrolysis to strand separation.
Dillingham MS, Soultanas P, Wigley DB.
Nucleic Acids Res. 27:3310-7 (1999) – [Pubmed]

138  —   original research
Nucleotide sequence, heterologous expression and novel purification of DNA ligase from Bacillus stearothermophilus(1).
Brannigan JA, Ashford SR, Doherty AJ, Timson DJ, Wigley DB.
Biochim. Biophys. Acta 1432:413-8 (1999) – [Pubmed]

137  —   original research
DNA binding mediates conformational changes and metal ion coordination in the active site of PcrA helicase.
Soultanas P, Dillingham MS, Velankar SS, Wigley DB.
J. Mol. Biol. 290:137-48 (1999) – [Pubmed]

136  —   original research
Structure of the adenylation domain of an NAD+-dependent DNA ligase.
Singleton MR, Håkansson K, Timson DJ, Wigley DB.
Structure 7:35-42 (1999) – [Pubmed]

135  —   original research
Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism.
Velankar SS, Soultanas P, Dillingham MS, Subramanya HS, Wigley DB.
Cell 97:75-84 (1999) – [Pubmed]

134  —   original research
Cloning, expression, and purification of Bacillus stearothermophilus DNA primase and crystallization of the zinc-binding domain.
Pan H, Bird LE, Wigley DB.
Biochim. Biophys. Acta 1444:429-33 (1999) – [Pubmed]

133  —   original research
The Bacillus stearothermophilus replicative helicase: cloning, overexpression and activity.
Bird LE, Wigley DB.
Biochim. Biophys. Acta 1444:424-8 (1999) – [Pubmed]

132  —   original research
Plasmid replication initiator protein RepD increases the processivity of PcrA DNA helicase.
Soultanas P, Dillingham MS, Papadopoulos F, Phillips SE, Thomas CD, Wigley DB.
Nucleic Acids Res. 27:1421-8 (1999) – [Pubmed]

131  —   original research
Functional domains of an NAD+-dependent DNA ligase.
Timson DJ, Wigley DB.
J. Mol. Biol. 285:73-83 (1999) – [Pubmed]

130  —   original research
Functional domains of an ATP-dependent DNA ligase.
Doherty AJ, Wigley DB.
J. Mol. Biol. 285:63-71 (1999) – [Pubmed]

1998     (19)

129  —   original research
Structure of the haemagglutinin-esterase-fusion glycoprotein of influenza C virus
Rosenthal PB, Zhang X, Formanowski F, Fitz W, Wong CH, Meier-Ewert H, Skehel JJ, Wiley DC
Nature 396:92-6 (1998) – [Pubmed]

128  —   original research
Structure of an XRCC1 BRCT domain:  A new protein-protein interaction module
Zhang X, Moréra S, Bates PA, Whitehead PC, Coffer AI, Hainbucher K, Nash RA, Sternberg MJ, Lindahl T, Freemont PS
EMBO J 17:6404-11 (1998) – [Pubmed]

127  —   review article
Translocations, fusion genes, and acute leukemia
Saha V, Young BD, Freemont PS
J Cell Biochem Suppl 30-31:264-76 (1998) – [Pubmed]

126  —   original research
Crystal structure at 1.95 Å resolution of the breast tumour-specific antibody SM3 complexed with its peptide epitope reveals novel hypervariable loop recognition
Dokurno P, Bates PA, Band HA, Stewart LM, Lally JM, Burchell JM, Taylor-Papadimitriou J, Snary D, Sternberg MJ, Freemont PS
J Mol Biol 284:713-28 (1998) – [Pubmed]

125  —   original research
Conformational analysis of the first observed non-proline cis-peptide bond occurring within the complementarity determining region (CDR) of an antibody
Bates PA, Dokurno P, Freemont PS, Sternberg MJ
J Mol Biol 284:549-55 (1998) – [Pubmed]

124  —   review article
Protein regulation:  Tag wrestling with relatives of ubiquitin
Hodges M, Tissot C, Freemont PS
Curr Biol 8:R749-52 (1998) – [Pubmed]

123  —   original research
Crystallization of an intact GST-estrogen receptor hormone binding domain fusion protein
Lally JM, Newman RH, Knowles PP, Islam S, Coffer AI, Parker M, Freemont PS
Acta Crystallogr D Biol Crystallogr 54:423-6 (1998) – [Pubmed]

122  —   original research
The human polycomb group complex associates with pericentromeric heterochromatin to form a novel nuclear domain
Saurin AJ, Shiels C, Williamson J, Satijn DP, Otte AP, Sheer D, Freemont PS
J Cell Biol 142:887-98 (1998) – [Pubmed]

121  —   original research
Structure, organization, and dynamics of promyelocytic leukemia protein nuclear bodies
Hodges M, Tissot C, Howe K, Grimwade D, Freemont PS
Am J Hum Genet 63:297-304 (1998) – [Pubmed]

120  —   original research
Ret finger protein is a normal component of PML nuclear bodies and interacts directly with PML
Cao T, Duprez E, Borden KL, Freemont PS, Etkin LD
J Cell Sci 111:1319-29 (1998) – [Pubmed]

119  —   original research
The disruption of ND10 during herpes simplex virus infection correlates with the Vmw110- and proteasome-dependent loss of several PML isoforms
Everett RD, Freemont P, Saitoh H, Dasso M, Orr A, Kathoria M, Parkinson J
J Virol 72:6581-91 (1998) – [Pubmed]

118  —   original research
Syntaxin 5 is a common component of the NSF- and p97-mediated reassembly pathways of Golgi cisternae from mitotic Golgi fragments in vitro
Rabouille C, Kondo H, Newman R, Hui N, Freemont P, Warren G
Cell 92:603-10 (1998) – [Pubmed]

117  —   original research
The ubiquitin-homology gene PIC1:  Characterization of mouse (Pic1) and human (UBL1) genes and pseudogenes
Howe K, Williamson J, Boddy N, Sheer D, Freemont P, Solomon E
Genomics 47:92-100 (1998) – [Pubmed]

116  —   review article
Teaching a new dog old tricks?
Wigley DB.
Structure 6:543-8 (1998) – [Pubmed]

115  —   original research
Escherichia coli ribosomal protein L3 stimulates the helicase activity of the Bacillus stearothermophilus PcrA helicase.
Soultanas P, Dillingham MS, Wigley DB.
Nucleic Acids Res. 26:2374-9 (1998) – [Pubmed]

114  —   original research
Characterisation of Bacillus stearothermophilus PcrA helicase: evidence against an active rolling mechanism.
Bird LE, Brannigan JA, Subramanya HS, Wigley DB.
Nucleic Acids Res. 26:2686-93 (1998) – [Pubmed]

113  —   review article
Conserved themes but novel activities in recombinases and topoisomerases.
Sherratt DJ, Wigley DB.
Cell 93:149-52 (1998) – [Pubmed]

112  —   review article
Helicases: a unifying structural theme?
Bird LE, Subramanya HS, Wigley DB.
Curr. Opin. Struct. Biol. 8:14-8 (1998) – [Pubmed]

111  —   original research
Structure of a complex between a cap analogue and mRNA guanylyl transferase demonstrates the structural chemistry of RNA capping.
Hâkansson K, Wigley DB.
Proc. Natl. Acad. Sci. U.S.A. 95:1505-10 (1998) – [Pubmed]

1997     (16)

110  —   original research
p47 is a cofactor for p97-mediated membrane fusion
Kondo H, Rabouille C, Newman R, Levine TP, Pappin D, Freemont P, Warren G
Nature 388:20-1 (1997) – [Pubmed]

109  —   original research
Mapping the organic and inorganic components of tissue using NEXAFS
Buckley CJ, Khaleque N, Bellamy SJ, Robins M, Zhang X
J Phys IV 7:83-90 (1997)

108  —   original research
Crystallization of an antitumour antibody SM3 complexed with a peptide epitope
Dokurno P, Lally JM, Bates PA, Taylor-Papadimitriou J, Band HA, Snary D, Freemont PS
Acta Crystallogr D Biol Crystallogr 53:780-1 (1997) – [Pubmed]

107  —   original research
The crystal structure of the human DNA repair endonuclease HAP1 suggests the recognition of extra-helical deoxyribose at DNA abasic sites
Gorman MA, Moréra S, Rothwell DG, de La Fortelle E, Mol CD, Tainer JA, Hickson ID, Freemont PS
EMBO J 16:6548-58 (1997) – [Pubmed]

106  —   original research
Surface residue mutations of the PML RING finger domain alter the formation of nuclear matrix-associated PML bodies
Boddy MN, Duprez E, Borden KL, Freemont PS
J Cell Sci 110:2197-205 (1997) – [Pubmed]

105  —   original research
Crystallization of the Fab fragment of the tumour-specific antibody PR1A3
Dokurno P, Lally JM, Bates PA, Band HA, Snary D, Freemont PS
Acta Crystallogr D Biol Crystallogr 53:472-3 (1997) – [Pubmed]

104  —   original research
Involvement of the rfp tripartite motif in protein-protein interactions and subcellular distribution
Cao T, Borden KL, Freemont PS, Etkin LD
J Cell Sci 110:1563-71 (1997) – [Pubmed]

103  —   original research
RING1 is associated with the polycomb group protein complex and acts as a transcriptional repressor
Satijn DP, Gunster MJ, van der Vlag J, Hamer KM, Schul W, Alkema MJ, Saurin AJ, Freemont PS, van Driel R, Otte AP
Mol Cell Biol 17:4105-13 (1997) – [Pubmed]

102  —   original research
Characterization of cryptic rearrangements and variant translocations in acute promyelocytic leukemia
Grimwade D, Gorman P, Duprez E, Howe K, Langabeer S, Oliver F, Walker H, Culligan D, Waters J, Pomfret M, Goldstone A, Burnett A, Freemont P, Sheer D, Solomon E
Blood 90:4876-85 (1997) – [Pubmed]

101  —   original research
p47 is a cofactor for p97-mediated membrane fusion
Kondo H, Rabouille C, Newman R, Levine TP, Pappin D, Freemont P, Warren G
Nature 388:75-8 (1997) – [Pubmed]

100  —   original research
The structure and functions of the HAP1/Ref-1 protein
Rothwell DG, Barzilay G, Gorman M, Moréra S, Freemont P, Hickson ID
Oncol Res 9:275-80 (1997) – [Pubmed]

99  —   original research
Crystal structure of the site-specific recombinase, XerD.
Subramanya HS, Arciszewska LK, Baker RA, Bird LE, Sherratt DJ, Wigley DB.
EMBO J. 16:5178-87 (1997) – [Pubmed]

98  —   original research
Characterization and crystallization of the helicase domain of bacteriophage T7 gene 4 protein.
Bird LE, Hâkansson K, Pan H, Wigley DB.
Nucleic Acids Res. 25:2620-6 (1997) – [Pubmed]

97  —   original research
X-ray crystallography reveals a large conformational change during guanyl transfer by mRNA capping enzymes.
Håkansson K, Doherty AJ, Shuman S, Wigley DB.
Cell 89:545-53 (1997) – [Pubmed]

96  —   original research
The high-resolution crystal structure of a 24-kDa gyrase B fragment from E. coli complexed with one of the most potent coumarin inhibitors, clorobiocin.
Tsai FT, Singh OM, Skarzynski T, Wonacott AJ, Weston S, Tucker A, Pauptit RA, Breeze AL, Poyser JP, O'Brien R, Ladbury JE, Wigley DB.
Proteins 28:41-52 (1997) – [Pubmed]

95  —   original research
A wasp head with a relaxing bite.
Wigley DB.
Structure 4:117-20 (1997) – [Pubmed]

1996     (17)

94  —   review article
Biological microscopy and soft x-ray optics at Stony Brook
Jacobsen C, Chapman HN, Fu J, Kalinovsky A, Kirz J, Maser J, Osanna A, Spector S, Tennant D, Wang S, Wirick S, Zhang X
J Electron Spectrosc 80:337-341 (1996)

93  —   original research
Mapping and measuring DNA to protein ratios in mammalian sperm head by XANES imaging
Zhang X, Balhorn R, Mazrimas J, Kirz J
J Struct Biol 116:335-44 (1996) – [Pubmed]

92  —   original research
PIC 1, a novel ubiquitin-like protein which interacts with the PML component of a multiprotein complex that is disrupted in acute promyelocytic leukaemia
Boddy MN, Howe K, Etkin LD, Solomon E, Freemont PS
Oncogene 13:971-82 (1996) – [Pubmed]

91  —   review article
The RING finger domain:  A recent example of a sequence-structure family
Borden KL, Freemont PS
Curr Opin Struct Biol 6:395-401 (1996) – [Pubmed]

90  —   review article
Does this have a familiar RING?
Saurin AJ, Borden KL, Boddy MN, Freemont PS
Trends Biochem Sci 21:208-14 (1996) – [Pubmed]

89  —   original research
In vivo and in vitro characterization of the B1 and B2 zinc-binding domains from the acute promyelocytic leukemia protooncoprotein PML
Borden KL, Lally JM, Martin SR, O'Reilly NJ, Solomon E, Freemont PS
Proc Natl Acad Sci USA 93:1601-6 (1996) – [Pubmed]

88  —   review article
Crystallography in the study of protein-DNA interactions
Brown DG, Freemont PS
Methods Mol Biol 56:293-318 (1996) – [Pubmed]

87  —   original research
Use of planar lipid monolayers for 2D crystallisation of proteins and simple analysis of specific lipid-peptide interactions
Newman RH, Freemont P
Thin Solid Films 284-285:18-23 (1996)

86  —   original research
20S human proteasomes bind with a specific orientation to lipid monolayers in vitro
Newman RH, Whitehead P, Lally J, Coffer A, Freemont P
Biochim Biophys Acta 1281:111-6 (1996) – [Pubmed]

85  —   original research
Effects of pancreatic spasmolytic Polypeptide (PSP) on epithelial cell function
Otto WR, Rao J, Cox HM, Kotzian E, Lee CY, Goodlad RA, Lane A, Gorman M, Freemont PS, Hansen HF, Pappin D, Wright NA
Eur J Biochem 235:64-72 (1996) – [Pubmed]

84  —   original research
Crystal structure of a DExx box DNA helicase.
Subramanya HS, Bird LE, Brannigan JA, Wigley DB.
Nature 384:379-83 (1996) – [Pubmed]

83  —   review article
Molecular mechanisms of drug inhibition of DNA gyrase.
Lewis RJ, Tsai FT, Wigley DB.
Bioessays 18:661-71 (1996) – [Pubmed]

82  —   original research
Characterization of proteolytic fragments of bacteriophage T7 DNA ligase.
Doherty AJ, Ashford SR, Wigley DB.
Nucleic Acids Res. 24:2281-7 (1996) – [Pubmed]

81  —   original research
Crystal structure of an ATP-dependent DNA ligase from bacteriophage T7.
Subramanya HS, Doherty AJ, Ashford SR, Wigley DB.
Cell 85:607-15 (1996) – [Pubmed]

80  —   original research
Bacteriophage T7 DNA ligase. Overexpression, purification, crystallization, and characterization.
Doherty AJ, Ashford SR, Subramanya HS, Wigley DB.
J. Biol. Chem. 271:11083-9 (1996) – [Pubmed]

79  —   original research
The nature of inhibition of DNA gyrase by the coumarins and the cyclothialidines revealed by X-ray crystallography.
Lewis RJ, Singh OM, Smith CV, Skarzynski T, Maxwell A, Wonacott AJ, Wigley DB.
EMBO J. 15:1412-20 (1996) – [Pubmed]

78  —   original research
Enzymatic ketonization of 2-hydroxymuconate: specificity and mechanism investigated by the crystal structures of two isomerases.
Subramanya HS, Roper DI, Dauter Z, Dodson EJ, Davies GJ, Wilson KS, Wigley DB.
Biochemistry 35:792-802 (1996) – [Pubmed]

1995     (7)

77  —   original research
Exposure strategies for polymethyl methacrylate from in situ x-ray absorption near edge structure spectroscopy
Zhang X, Jacobsen C, Lindaas S, Williams S
J Vac Sci Technol B 13:1477 (1995)

76  —   original research
Novel topology of a zinc-binding domain from a protein involved in regulating early Xenopus development
Borden KL, Lally JM, Martin SR, O'Reilly NJ, Etkin LD, Freemont PS
EMBO J 14:5947-56 (1995) – [Pubmed]

75  —   original research
The solution structure of the RING finger domain from the acute promyelocytic leukaemia proto-oncoprotein PML
Borden KL, Boddy MN, Lally J, O'Reilly NJ, Martin S, Howe K, Solomon E, Freemont PS
EMBO J 14:1532-41 (1995) – [Pubmed]

74  —   original research
Substance P-related antagonists inhibit vasopressin and bombesin but not 5'-3-O-(thio)triphosphate-stimulated inositol phosphate production in Swiss 3T3 cells
Seckl MJ, Newman RH, Freemont PS, Rozengurt E
J Cell Physiol 163:87-95 (1995) – [Pubmed]

73  —   original research
Characterisation of the single copy trefoil peptides intestinal trefoil factor and pS2 and their ability to form covalent dimers
Chinery R, Bates PA, De A, Freemont PS
FEBS Lett 357:50-4 (1995) – [Pubmed]

72  —   original research
A superior host strain for the over-expression of cloned genes using the T7 promoter based vectors.
Doherty AJ, Ashford SR, Brannigan JA, Wigley DB.
Nucleic Acids Res. 23:2074-5 (1995) – [Pubmed]

71  —   review article
Structure and mechanism of DNA topoisomerases.
Wigley DB.
Annu Rev Biophys Biomol Struct 24:185-208 (1995) – [Pubmed]

1994     (11)

70  —   review article
Micro-Xanes – Chemical contrast in the scanning-transmission x-ray microscope
Zhang X, Ade H, Jacobsen C, Kirz J, Lindaas S, Williams S, Wirick S
Nucl Instrum Meth A 347:431-5 (1994)

Crystal structure of the DNA modifying enzyme β-glucosyltransferase in the presence and absence of the substrate uridine diphosphoglucose
Vrielink A, Rüger W, Driessen HP, Freemont PS
EMBO J 13:3413-22 (1994) – [Pubmed]

The p53-associated protein MDM2 contains a newly characterized zinc-binding domain called the RING finger
Boddy MN, Freemont PS, Borden KL
Trends Biochem Sci 19:198-9 (1994) – [Pubmed]

Microcrystals of the β1 isoenzyme of protein kinase C:  An electron microscopic study
Newman RH, Carpenter E, Freemont PS, Blundell TL, Parker PJ
Biochem J 298:391-3 (1994) – [Pubmed]

Crystal structure of a disulfide-linked "trefoil" motif found in a large family of putative growth factors
De A, Brown DG, Gorman MA, Carr M, Sanderson MR, Freemont PS
Proc Natl Acad Sci USA 91:1084-8 (1994) – [Pubmed]

65  —   original research
The third IgG-binding domain from streptococcal protein G. An analysis by X-ray crystallography of the structure alone and in a complex with Fab.
Derrick JP, Wigley DB.
J. Mol. Biol. 243:906-18 (1994) – [Pubmed]

64  —   original research
Preliminary crystallographic analysis of 4-oxalocrotonate tautomerase reveals the oligomeric structure of the enzyme.
Roper DI, Subramanya HS, Shingler V, Wigley DB.
J. Mol. Biol. 243:799-801 (1994) – [Pubmed]

63  —   original research
Crystallization of inhibitor complexes of an N-terminal 24 kDa fragment of the DNA gyrase B protein.
Lewis RJ, Singh OM, Smith CV, Maxwell A, Skarzynski T, Wonacott AJ, Wigley DB.
J. Mol. Biol. 241:128-30 (1994) – [Pubmed]

62  —   original research
Allosteric activation in Bacillus stearothermophilus lactate dehydrogenase investigated by an X-ray crystallographic analysis of a mutant designed to prevent tetramerization of the enzyme.
Cameron AD, Roper DI, Moreton KM, Muirhead H, Holbrook JJ, Wigley DB.
J. Mol. Biol. 238:615-25 (1994) – [Pubmed]

61  —   original research
Three-dimensional model of Escherichia coli gyrase B subunit crystallized in two-dimensions on novobiocin-linked phospholipid films.
Celia H, Hoermann L, Schultz P, Lebeau L, Mallouh V, Wigley DB, Wang JC, Mioskowski C, Oudet P.
J. Mol. Biol. 236:618-28 (1994) – [Pubmed]

60  —   original research
Structure and mechanism of streptococcal protein G.
Derrick JP, Wigley DB, Lian LY, Sutcliffe MJ, Yang JC, Dawson PD, Roberts GC.
Biochem. Soc. Trans. 21:333S (1994) – [Pubmed]

1993     (8)

59  —   original research
Measurements of wet metaphase chromosomes in the scanning transmission x-ray microscope
Williams S, Zhang X, Jacobsen C, Kirz J, Lindaas S, Van't Hof J, Lamm JJ
J Microsc 170:155-65 (1993)

58  —   review article
Scanning luminescence x-ray microscopy:  Imaging fluorescence dyes at suboptical resolution
Jacobsen C, Lindaas S, Williams S, Zhang X
J Microsc 172:121-29 (1993)

57  —   original research
New results in soft-x-ray microscopy
Kirz J, Ade H, Anderson E, Buckley C, Chapman H, Howells M, Jacobsen C, Ko Ch, Lindaas S, Sayre D, Williams S, Wirick S, Zhang X
Nucl Instrum Meth B 87:92-7 (1993)

Characterisation of a novel cysteine/histidine-rich metal binding domain from Xenopus nuclear factor XNF7
Borden KL, Martin SR, O'Reilly NJ, Lally JM, Reddy BA, Etkin LD, Freemont PS
FEBS Lett 335:255-60 (1993) – [Pubmed]

The RING finger.  A novel protein sequence motif related to the zinc finger
Freemont PS
Ann N Y Acad Sci 684:174-92 (1993) – [Pubmed]

Identification and preliminary characterization of a protein motif related to the zinc finger
Lovering R, Hanson IM, Borden KL, Martin S, O'Reilly NJ, Evan GI, Rahman D, Pappin DJ, Trowsdale J, Freemont PS
Proc Natl Acad Sci USA 90:2112-6 (1993) – [Pubmed]

53  —   review article
Structural biology. Max in a complex affair
Freemont P
Nature 363:20-1 (1993) – [Pubmed]

52  —   original research
The structural consequences of exchanging tryptophan and tyrosine residues in B. stearothermophilus lactate dehydrogenase.
Roper DI, Moreton KM, Wigley DB, Holbrook JJ.
Protein Eng. 5:611-5 (1993) – [Pubmed]

1992     (10)

51  —   original research
Chemical contrast in x-ray microscopy and spatially resolved XANES spectroscopy of organic specimens
Ade H, Zhang X, Cameron S, Costello C, Kirz J, Williams S
Science 258:972-5 (1992) – [Pubmed]

50  —   review article
Soft-x-ray microscopy with coherent x-rays
Kirz J, Ade H, Jacobsen C, Ko Ch, Lindaas S, McNulty I, Sayre D, Williams S, Zhang X, Howells M
Rev Sci Instrum 63:557-63 (1992)

Crystallization and preliminary X-ray diffraction studies of pancreatic spasmolytic polypeptide
Gorman MA, De A, Freemont PS
J Mol Biol 228:991-4 (1992) – [Pubmed]

An ovarian tumor marker with homology to vaccinia virus contains an IgV-like region and multiple transmembrane domains
Campbell IG, Freemont PS, Foulkes W, Trowsdale J
Cancer Res 52:5416-20 (1992) – [Pubmed]

A novel zinc finger coiled-coil domain in a family of nuclear proteins
Reddy BA, Etkin LD, Freemont PS
Trends Biochem Sci 17:344-5 (1992) – [Pubmed]

A model of the structure of human annexin VI bound to lipid monolayers
Driessen HP, Newman RH, Freemont PS, Crumpton MJ
FEBS Lett 306:75-9 (1992) – [Pubmed]

45  —   review article
Janus-faced proteins
Freemont P, Newman R, Driessen H
Curr Biol 2:98-100 (1992) – [Pubmed]

44  —   original research
Crystal structure of a streptococcal protein G domain bound to an Fab fragment.
Derrick JP, Wigley DB.
Nature 359:752-4 (1992) – [Pubmed]

43  —   original research
Crystallization and preliminary X-ray analysis of the complex between a mouse Fab fragment and a single IgG-binding domain from streptococcal protein G.
Derrick JP, Davies GJ, Dauter Z, Wilson KS, Wigley DB.
J. Mol. Biol. 227:1253-4 (1992) – [Pubmed]

42  —   original research
Structure of a ternary complex of an allosteric lactate dehydrogenase from Bacillus stearothermophilus at 2.5 A resolution.
Wigley DB, Gamblin SJ, Turkenburg JP, Dodson EJ, Piontek K, Muirhead H, Holbrook JJ.
J. Mol. Biol. 223:317-35 (1992) – [Pubmed]

1991     (10)

41  —   original research
Diffraction-limited imaging in a scanning transmission x-ray microscope
Jacobsen C, Williams S, Anderson E, Browne MT, Buckley CJ, Kern D, Kirz J, Rivers M, and Zhang X
Optics Communications 86:351-361 (1991)

Characterization of a zinc finger gene disrupted by the t(15;17) in acute promyelocytic leukemia
Goddard AD, Borrow J, Freemont PS, Solomon E
Science 254:1371-4 (1991) – [Pubmed]

Structural aspects of protein-DNA recognition
Freemont PS, Lane AN, Sanderson MR
Biochem J 278:1-23 (1991) – [Pubmed]

Amino acid sequence analysis of the annexin super-gene family of proteins
Barton GJ, Newman RH, Freemont PS, Crumpton MJ
Eur J Biochem 198:749-60 (1991) – [Pubmed]

A novel cysteine-rich sequence motif
Freemont PS, Hanson IM, Trowsdale J
Cell 64:483-4 (1991) – [Pubmed]

36  —   original research
Identification of p8,14 as a highly abundant heterodimeric calcium binding protein complex of myeloid cells
Edgeworth J, Gorman M, Bennett R, Freemont P, Hogg N
J Biol Chem 266:7706-13 (1991) – [Pubmed]

35  —   original research
Isolation and characterisation of a testis-expressed developmentally regulated gene from the distal inversion of the mouse t-complex
Mazarakis ND, Nelki D, Lyon MF, Ruddy S, Evans EP, Freemont P, Dudley K
Development 111:561-71 (1991) – [Pubmed]

34  —   original research
Crystal structure of an N-terminal fragment of the DNA gyrase B protein.
Wigley DB, Davies GJ, Dodson EJ, Maxwell A, Dodson G.
Nature 351:624-9 (1991) – [Pubmed]

33  —   original research
Preliminary crystallographic analysis of the ATP-hydrolysing domain of the Escherichia coli DNA gyrase B protein.
Jackson AP, Maxwell A, Wigley DB.
J. Mol. Biol. 217:15-7 (1991) – [Pubmed]

32  —   original research
The serine acetyltransferase from Escherichia coli. Over-expression, purification and preliminary crystallographic analysis.
Wigley DB, Derrick JP, Shaw WV.
FEBS Lett. 277:267-71 (1991) – [Pubmed]

1990     (7)

The crystal structure of the catalytic domain of the site-specific recombination enzyme gamma delta resolvase at 2.7 Å resolution
Sanderson MR, Freemont PS, Rice PA, Goldman A, Hatfull GF, Grindley ND, Steitz TA
Cell 63:1323-9 (1990) – [Pubmed]

Interaction of synthetic peptides from annexin I and uteroglobin with lipid monolayers and their effect on phospholipase A2 activity
Newman RH, Freemont PS, Barton GJ, Crumpton MJ
Biochem Soc Trans 18:1233-4 (1990) – [Pubmed]

A review of studies leading towards a three-dimensional understanding of the annexin family of proteins
Freemont PS
Biochem Soc Trans 18:1098-101 (1990) – [Pubmed]

Crystallization and preliminary X-ray crystallographic studies of human placental annexin IV
Freemont PS, Driessen HP, Verbi W, Crumpton MJ
J Mol Biol 216:219-212 (1990) – [Pubmed]

27  —   original research
Preliminary crystallographic analysis of the breakage-reunion domain of the Escherichia coli DNA gyrase A protein.
Reece RJ, Dauter Z, Wilson KS, Maxwell A, Wigley DB.
J. Mol. Biol. 215:493-5 (1990) – [Pubmed]

26  —   original research
Cloning of the DNA gyrase genes under tac promoter control: overproduction of the gyrase A and B proteins.
Hallett P, Grimshaw AJ, Wigley DB, Maxwell A.
Gene 93:139-42 (1990) – [Pubmed]

25  —   original research
Preliminary crystallographic analysis of 5-carboxymethyl-2-hydroxymuconate isomerase from Escherichia coli.
Wigley DB, Roper DI, Cooper RA.
J. Mol. Biol. 210:881-2 (1990) – [Pubmed]

1989     (5)

24  —   book chapter
Structural model for the editing decision of Escherichia coli DNA polymerase I
Joyce CM, Friedman JM, Beese L, Freemont PS, Steitz TA
in DNA Replication and Mutagenesis (edited by Moses RE, Summers WC), American Society for Microbiology (1989)

Preparation of heavy-atom derivatives using site-directed mutagenesis.  Introduction of cysteine residues into gamma delta resolvase
Hatfull GF, Sanderson MR, Freemont PS, Raccuia PR, Grindley ND, Steitz TA
J Mol Biol 208:661-7 (1989) – [Pubmed]

22  —   original research
Ionomycin-regulated phosphorylation of the myeloid calcium-binding protein p14
Edgeworth J, Freemont P, Hogg N
Nature 342:189-92 (1989) – [Pubmed]

Sequence identity
Freemont P, Hogg N, Edgeworth J
Nature 339:516 (1989) – [Pubmed]

20  —   original research
Crystallization of a ternary complex of lactate dehydrogenase from Bacillus stearothermophilus.
Wigley DB, Muirhead H, Gamblin SJ, Holbrook JJ.
J. Mol. Biol. 204:1041-3 (1989) – [Pubmed]

1988     (9)

Cocrystal structure of an editing complex of Klenow fragment with DNA
Freemont PS, Friedman JM, Beese LS, Sanderson MR, Steitz TA
Proc Natl Acad Sci USA 85:8924-8 (1988) – [Pubmed]

Crystallization and preliminary X-ray studies of T4 phage β-glucosyltransferase
Freemont PS, Rüger W
J Mol Biol 203:525-6 (1988) – [Pubmed]

Purification and crystallization of thymidine kinase from herpes simplex virus type 1
Sanderson MR, Freemont PS, Murthy HM, Krane JF, Summers WC, Steitz TA
J Mol Biol 202:917-9 (1988) – [Pubmed]

Genetic and crystallographic studies of the 3',5'-exonucleolytic site of DNA polymerase I
Derbyshire V, Freemont PS, Sanderson MR, Beese L, Friedman JM, Joyce CM, Steitz TA
Science 240:199-201 (1988) – [Pubmed]

The complete amino acid sequence of human skeletal-muscle fructose-bisphosphate aldolase
Freemont PS, Dunbar B, Fothergill-Gilmore LA
Biochem J 249:779-88 (1988) – [Pubmed]

The predicted secondary structures of class I fructose-bisphosphate aldolases
Sawyer L, Fothergill-Gilmore LA, Freemont PS
Biochem J 249:789-93 (1988) – [Pubmed]

13  —   original research
The use of genetically engineered tryptophan to identify the movement of a domain of B. stearothermophilus lactate dehydrogenase with the process which limits the steady-state turnover of the enzyme.
Waldman AD, Hart KW, Clarke AR, Wigley DB, Barstow DA, Atkinson T, Chia WN, Holbrook JJ.
Biochem. Biophys. Res. Commun. 150:752-9 (1988) – [Pubmed]

12  —   original research
The greater strength of arginine: carboxylate over lysine carboxylate ion pairs implications for the design of novel enzymes and drugs.
Wigley DB, Lyall A, Hart KW, Holbrook JJ.
Biochem. Biophys. Res. Commun. 149:927-9 (1988) – [Pubmed]

11  —   original research
Mapping motion in large proteins by single tryptophan probes inserted by site-directed mutagenesis: lactate dehydrogenase.
Atkinson T, Barstow DA, Chia WN, Clarke AR, Hart KW, Waldman AD, Wigley DB, Wilks H, Holbrook JJ.
Biochem. Soc. Trans. 15:991-3 (1988) – [Pubmed]

1987     (7)

Structural studies of Klenow fragment:  An enzyme with two active sites
Steitz TA, Beese L, Freemont PS, Friedman JM, Sanderson MR
Cold Spring Harb Symp Quant Biol 52:465-71 (1987) – [Pubmed]

9  —   original research
The engineering of a more thermally stable lactate dehydrogenase by reduction of the area of a water-accessible hydrophobic surface.
Wigley DB, Clarke AR, Dunn CR, Barstow DA, Atkinson T, Chia WN, Muirhead H, Holbrook JJ.
Biochim. Biophys. Acta 916:145-8 (1987) – [Pubmed]

8  —   original research
A strong carboxylate-arginine interaction is important in substrate orientation and recognition in lactate dehydrogenase.
Hart KW, Clarke AR, Wigley DB, Waldman AD, Chia WN, Barstow DA, Atkinson T, Jones JB, Holbrook JJ.
Biochim. Biophys. Acta 914:294-8 (1987) – [Pubmed]

7  —   original research
The importance of arginine 171 in substrate binding by Bacillus stearothermophilus lactate dehydrogenase.
Hart KW, Clarke AR, Wigley DB, Chia WN, Barstow DA, Atkinson T, Holbrook JJ.
Biochem. Biophys. Res. Commun. 146:346-53 (1987) – [Pubmed]

6  —   original research
A single amino acid substitution deregulates a bacterial lactate dehydrogenase and stabilizes its tetrameric structure.
Clarke AR, Wigley DB, Barstow DA, Chia WN, Atkinson T, Holbrook JJ.
Biochim. Biophys. Acta 913:72-80 (1987) – [Pubmed]

5  —   original research
The use of site-directed mutagenesis and time-resolved fluorescence spectroscopy to assign the fluorescence contributions of individual tryptophan residues in Bacillus stearothermophilus lactate dehydrogenase.
Waldman AD, Clarke AR, Wigley DB, Hart KW, Chia WN, Barstow D, Atkinson T, Munro I, Holbrook JJ.
Biochim. Biophys. Acta 913:66-71 (1987) – [Pubmed]

4  —   original research
Site-directed mutagenesis reveals role of mobile arginine residue in lactate dehydrogenase catalysis.
Clarke AR, Wigley DB, Chia WN, Barstow D, Atkinson T, Holbrook JJ.
Nature 324:699-702 (1987) – [Pubmed]

1986     (2)

A domain of the Klenow fragment of Escherichia coli DNA polymerase I has polymerase but no exonuclease activity
Freemont PS, Ollis DL, Steitz TA, Joyce CM
Proteins 1:66-73 (1986) – [Pubmed]

Functional implications of the Klenow fragment structure
Steitz TA, Freemont PS, Ollis DL, Joyce CM, Grindley JM
Biochem Soc Trans 14:205-7 (1986) – [Pubmed]

1984     (1)

1  —   original research
Human skeletal-muscle aldolase:  N-terminal sequence analysis of CNBr- and o-iodosobenzoic acid-cleavage fragments
Freemont PS, Dunbar B, Fothergill LA
Arch Biochem Biophys 228:342-52 (1984) – [Pubmed]