Imperial College London

ProfessorXiaodongZhang

Faculty of MedicineDepartment of Medicine

Professor of Macromolecular Structure and Function
 
 
 
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Contact

 

+44 (0)20 7594 3151xiaodong.zhang Website

 
 
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Assistant

 

Mrs Kasia Pearce +44 (0)20 7594 2763

 
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Location

 

104Sir Alexander Fleming BuildingSouth Kensington Campus

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Summary

 

Publications

Publication Type
Year
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112 results found

Glyde R, Ye F, Jovanovic M, Kotta-Loizou I, Buck M, Zhang Xet al., 2018, Structures of Bacterial RNA Polymerase Complexes Reveal the Mechanism of DNA Loading and Transcription Initiation, MOLECULAR CELL, Vol: 70, Pages: 1111-+, ISSN: 1097-2765

JOURNAL ARTICLE

Ayala R, Willhoft O, Aramayo RJ, Wilkinson M, McCormack EA, Ocloo L, Wigley DB, Zhang Xet al., 2018, Structure and regulation of the human INO80-nucleosome complex, NATURE, Vol: 556, Pages: 391-+, ISSN: 0028-0836

JOURNAL ARTICLE

Aramayo RJ, Willhoft O, Ayala R, Bythell-Douglas R, Wigley DB, Zhang Xet al., 2018, Cryo-EM structures of the human INO80 chromatin-remodeling complex, NATURE STRUCTURAL & MOLECULAR BIOLOGY, Vol: 25, Pages: 37-+, ISSN: 1545-9993

JOURNAL ARTICLE

Glyde R, Ye F, Darbari VC, Zhang N, Buck M, Zhang Xet al., 2017, Structures of RNA Polymerase Closed and Intermediate Complexes Reveal Mechanisms of DNA Opening and Transcription Initiation, MOLECULAR CELL, Vol: 67, Pages: 106-+, ISSN: 1097-2765

JOURNAL ARTICLE

Willhoft O, McCormack EA, Aramayo RJ, Bythell-Douglas R, Ocloo L, Zhang X, Wigley DBet al., 2017, Crosstalk within a functional INO80 complex dimer regulates nucleosome sliding, ELIFE, Vol: 6, ISSN: 2050-084X

JOURNAL ARTICLE

Sawicka M, Aramayo R, Ayala R, Glyde R, Zhang Xet al., 2017, Single-Particle Electron Microscopy Analysis of DNA Repair Complexes, Methods in Enzymology, Vol: 592, Pages: 159-186, ISSN: 0076-6879

DNA repair complexes play crucial roles in maintaining genome integrity, which is essential for the survival of an organism. The understanding of their modes of action is often obscure due to limited structural knowledge. Structural characterizations of these complexes are often challenging due to a poor protein production yield, a conformational flexibility, and a relatively high molecular mass. Single-particle electron microscopy (EM) has been successfully applied to study some of these complexes as it requires low amount of samples, is not limited by the high molecular mass of a protein or a complex, and can separate heterogeneous assemblies. Recently, near-atomic resolution structures have been obtained with EM owing to the advances in technology and image processing algorithms. In this chapter, we review the EM methodology of obtaining three-dimensional reconstructions of macromolecular complexes and provide a workflow that can be applied to DNA repair complex assemblies.

JOURNAL ARTICLE

Zhang N, Darbari VC, Glyde R, Zhang X, Buck Met al., 2016, The bacterial enhancer-dependent RNA polymerase, BIOCHEMICAL JOURNAL, Vol: 473, Pages: 3741-3753, ISSN: 0264-6021

JOURNAL ARTICLE

von Nicolai C, Ehlen A, Martin C, Zhang X, Carreira Aet al., 2016, A second DNA binding site in human BRCA2 promotes homologous recombination, NATURE COMMUNICATIONS, Vol: 7, ISSN: 2041-1723

JOURNAL ARTICLE

Sawicka M, Wanrooij PH, Darbari VC, Tannous E, Hailemariam S, Bose D, Makarova AV, Burgers PM, Zhang Xet al., 2016, The dimeric architecture of checkpoint kinases Mec1ATR and Tel1ATM reveal a common structural organisation., Journal of Biological Chemistry, Vol: 291, Pages: 13436-13447, ISSN: 1083-351X

The phosphatidylinositol 3-kinase-related protein kinases (PIKKs) are key regulators controlling a wide range of cellular events. The yeast Tel1 and Mec1-Ddc2 complex (ATM and ATR-ATRIP in humans) play pivotal roles in DNA replication, DNA damage signalling and repair. Here, we present the first structural insight for dimers of Mec1-Ddc2 and Tel1 using single particle electron microscopy. Both kinases reveal a head-to-head dimer with one major dimeric interface through their N-terminal HEAT repeats. Their dimeric interface is significantly distinct from the interface of mTOR Complex 1 dimer, which oligomerises through two spatially separate interfaces. We also observe different structural organisation of kinase domains of Mec1 and Tel1. The kinase domains in the Mec1-Ddc2 dimer are located in close proximity to each other. However, in the Tel1 dimer they are fully separated providing potential access of substrates to this kinase, even in its dimeric form.

JOURNAL ARTICLE

Zhang N, Jovanovic G, McDonald C, Ces O, Zhang X, Buck Met al., 2016, Transcription Regulation and Membrane Stress Management in Enterobacterial Pathogens, BIOPHYSICS OF INFECTION, Vol: 915, Pages: 207-230, ISSN: 0065-2598

JOURNAL ARTICLE

Zhang N, Schaefer J, Sharma A, Rayner L, Zhang X, Tuma R, Stockley P, Buck Met al., 2015, Mutations in RNA Polymerase Bridge Helix and Switch Regions Affect Active-Site Networks and Transcript-Assisted Hydrolysis, JOURNAL OF MOLECULAR BIOLOGY, Vol: 427, Pages: 3516-3526, ISSN: 0022-2836

JOURNAL ARTICLE

Yang Y, Darbari VC, Zhang N, Lu D, Glyde R, Wang Y-P, Winkelman JT, Gourse RL, Murakami KS, Buck M, Zhang Xet al., 2015, Structures of the RNA polymerase-sigma(54) reveal new and conserved regulatory strategies, SCIENCE, Vol: 349, Pages: 882-885, ISSN: 0036-8075

JOURNAL ARTICLE

Bush M, Ghosh T, Sawicka M, Moal IH, Bates PA, Dixon R, Zhang Xet al., 2015, The structural basis for enhancer-dependent assembly and activation of the AAA transcriptional activator NorR, MOLECULAR MICROBIOLOGY, Vol: 95, Pages: 17-30, ISSN: 0950-382X

JOURNAL ARTICLE

Shahid T, Soroka J, Kong EH, Malivert L, McIlwraith MJ, Pape T, West SC, Zhang Xet al., 2014, Structure and mechanism of action of the BRCA2 breast cancer tumor suppressor, NATURE STRUCTURAL & MOLECULAR BIOLOGY, Vol: 21, Pages: 962-968, ISSN: 1545-9993

JOURNAL ARTICLE

Liu J, Yang J, Wen J, Yang Y, Wei X, Zhang X, Wang Y-Pet al., 2014, Mutational analysis of dimeric linkers in peri- and cytoplasmic domains of histidine kinase DctB reveals their functional roles in signal transduction, OPEN BIOLOGY, Vol: 4, ISSN: 2046-2441

JOURNAL ARTICLE

Ewens CA, Panico S, Kloppsteck P, McKeown C, Ebong I-O, Robinson C, Zhang X, Freemont PSet al., 2014, The p97-FAF1 Protein Complex Reveals a Common Mode of p97 Adaptor Binding, JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 289, Pages: 12077-12084, ISSN: 0021-9258

JOURNAL ARTICLE

Sharma A, Leach RN, Gell C, Zhang N, Burrows PC, Shepherd DA, Wigneshweraraj S, Smith DA, Zhang X, Buck M, Stockley PG, Tuma Ret al., 2014, Domain movements of the enhancer-dependent sigma factor drive DNA delivery into the RNA polymerase active site: insights from single molecule studies, NUCLEIC ACIDS RESEARCH, Vol: 42, Pages: 5177-5190, ISSN: 0305-1048

JOURNAL ARTICLE

Yeung HO, Foerster A, Bebeacua C, Niwa H, Ewens C, McKeown C, Zhang X, Freemont PSet al., 2014, Inter-ring rotations of AAA ATPase p97 revealed by electron cryomicroscopy, OPEN BIOLOGY, Vol: 4, ISSN: 2046-2441

JOURNAL ARTICLE

Darbari VC, Lawton E, Lu D, Burrows PC, Wiesler S, Joly N, Zhang N, Zhang X, Buck Met al., 2014, Molecular basis of nucleotide-dependent substrate engagement and remodeling by an AAA plus activator, NUCLEIC ACIDS RESEARCH, Vol: 42, Pages: 9249-9261, ISSN: 0305-1048

JOURNAL ARTICLE

Saravanan M, Wuerges J, Bose D, McCormack EA, Cook NJ, Zhang X, Wigley DBet al., 2012, Interactions between the nucleosome histone core and Arp8 in the INO80 chromatin remodeling complex, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 109, Pages: 20883-20888, ISSN: 0027-8424

JOURNAL ARTICLE

Fillet S, Daniels C, Pini C, Krell T, Duque E, Bernal P, Segura A, Lu D, Zhang X, Ramos J-Let al., 2012, Transcriptional control of the main aromatic hydrocarbon efflux pump in Pseudomonas, ENVIRONMENTAL MICROBIOLOGY REPORTS, Vol: 4, Pages: 158-167, ISSN: 1758-2229

JOURNAL ARTICLE

Niwa H, Ewens CA, Tsang C, Yeung HO, Zhang X, Freemont PSet al., 2012, The Role of the N-Domain in the ATPase Activity of the Mammalian AAA ATPase p97/VCP, JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 287, Pages: 8561-8570, ISSN: 0021-9258

JOURNAL ARTICLE

Bebeacua C, Foerster A, McKeown C, Meyer HH, Zhang X, Freemont PSet al., 2012, Distinct conformations of the protein complex p97-Ufd1-Npl4 revealed by electron cryomicroscopy, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 109, Pages: 1098-1103, ISSN: 0027-8424

JOURNAL ARTICLE

Joly N, Zhang N, Buck M, Zhang Xet al., 2012, Coupling AAA protein function to regulated gene expression, BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH, Vol: 1823, Pages: 108-116, ISSN: 0167-4889

JOURNAL ARTICLE

Kloppsteck P, Ewens CA, Foerster A, Zhang X, Freemont PSet al., 2012, Regulation of p97 in the ubiquitin-proteasome system by the UBX protein-family, BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH, Vol: 1823, Pages: 125-129, ISSN: 0167-4889

JOURNAL ARTICLE

Fillet S, Krell T, Morel B, Lu D, Zhang X, Ramos JLet al., 2011, Intramolecular signal transmission in a tetrameric repressor of the IclR family, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 108, Pages: 15372-15377, ISSN: 0027-8424

JOURNAL ARTICLE

Jovanovic M, Burrows PC, Bose D, Camara B, Wiesler S, Zhang X, Wigneshweraraj S, Weinzierl ROJ, Buck Met al., 2011, Activity Map of the Escherichia coli RNA Polymerase Bridge Helix, JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 286, Pages: 14469-14479, ISSN: 0021-9258

JOURNAL ARTICLE

Bush M, Ghosh T, Tucker N, Zhang X, Dixon Ret al., 2011, Transcriptional regulation by the dedicated nitric oxide sensor, NorR: a route towards NO detoxification, BIOCHEMICAL SOCIETY TRANSACTIONS, Vol: 39, Pages: 289-293, ISSN: 0300-5127

JOURNAL ARTICLE

Klein BJ, Bose D, Baker KJ, Yusoff ZM, Zhang X, Murakami KSet al., 2011, RNA polymerase and transcription elongation factor Spt4/5 complex structure, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 108, Pages: 546-550, ISSN: 0027-8424

JOURNAL ARTICLE

Alguel Y, Lu D, Quade N, Sauter S, Zhang Xet al., 2010, Crystal structure of MexZ, a key repressor responsible for antibiotic resistance in Pseudomonas aeruginosa, JOURNAL OF STRUCTURAL BIOLOGY, Vol: 172, Pages: 305-310, ISSN: 1047-8477

JOURNAL ARTICLE

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