6CC4

Structure of MurJ from Escherichia coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.280 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure and mutagenic analysis of the lipid II flippase MurJ fromEscherichia coli.

Zheng, S.Sham, L.T.Rubino, F.A.Brock, K.P.Robins, W.P.Mekalanos, J.J.Marks, D.S.Bernhardt, T.G.Kruse, A.C.

(2018) Proc. Natl. Acad. Sci. U.S.A. 115: 6709-6714

  • DOI: 10.1073/pnas.1802192115

  • PubMed Abstract: 
  • The peptidoglycan cell wall provides an essential protective barrier in almost all bacteria, defining cellular morphology and conferring resistance to osmotic stress and other environmental hazards. The precursor to peptidoglycan, lipid II, is assemb ...

    The peptidoglycan cell wall provides an essential protective barrier in almost all bacteria, defining cellular morphology and conferring resistance to osmotic stress and other environmental hazards. The precursor to peptidoglycan, lipid II, is assembled on the inner leaflet of the plasma membrane. However, peptidoglycan polymerization occurs on the outer face of the plasma membrane, and lipid II must be flipped across the membrane by the MurJ protein before its use in peptidoglycan synthesis. Due to its central role in cell wall assembly, MurJ is of fundamental importance in microbial cell biology and is a prime target for novel antibiotic development. However, relatively little is known regarding the mechanisms of MurJ function, and structural data for MurJ are available only from the extremophile Thermosipho africanus Here, we report the crystal structure of substrate-free MurJ from the gram-negative model organism Escherichia coli , revealing an inward-open conformation. Taking advantage of the genetic tractability of E. coli , we performed high-throughput mutagenesis and next-generation sequencing to assess mutational tolerance at every amino acid in the protein, providing a detailed functional and structural map for the enzyme and identifying sites for inhibitor development. Lastly, through the use of sequence coevolution analysis, we identify functionally important interactions in the outward-open state of the protein, supporting a rocker-switch model for lipid II transport.


    Organizational Affiliation

    Research Institute for Interdisciplinary Science, Okayama University, 700-8530 Okayama, Japan.,Department of Integrative Structural and Computational Biology and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, BCC206, La Jolla, CA 92037, USA.,Ferrier Research Institute, Victoria University of Wellington, Wellington 6140, New Zealand.,Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom. Electronic address: mh256@cam.ac.uk.,Center for Nano Science and Technology @Polimi, Istituto Italiano di Tecnologia, Via G. Pascoli 70/3, 20133, Milano, Italy. emilio.parisini@iit.it.,Department of Plant and Microbial Biology, University of Zurich, Zollikerstrasse 107, 8008 Zurich, Switzerland.,Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston, TX 77555, USA.,Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, United States.,Central European Institute of Technology, Masaryk University, 62500 Brno, Czech Republic.,Department of Chemistry and Biochemistry, University of Lethbridge, Alberta T1K 3M4, Canada.,Biomolecular Engineering Lab, Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Piazza Leonardo da Vinci 32, 20133, Milano, Italy.,Chemistry Department, University of Zurich, Winterthurerstrasse 190, 8057 Zurich, Switzerland.,Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA; NSLS-II, Brookhaven National Laboratory, Upton, NY 11973, USA. Electronic address: qunliu@bnl.gov.,Materials and Structural Analysis, Thermo Fisher Scientific, Eindhoven, The Netherlands.,State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, 100084 Beijing, China; suisf@mail.tsinghua.edu.cn shen@cc.okayama-u.ac.jp.,Shanghai Institute for Advanced Immunochemical Studies, ShanghaiTech University, Shanghai 201210, China.,ARC Centre of Excellence in Advanced Molecular Imaging, Monash University, Clayton, Victoria 3800, Australia.,Institute of Molecular Systems Biology and Department of Health Sciences and Technology, ETH Zürich, Otto-Stern-Weg 3, 8093 Zürich, Switzerland.,Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.,Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.,Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA bgraham@nih.gov.,Department of Biological Sciences, Purdue University, West Lafayette, Indiana, USA.,CEA, Institut des Sciences du Vivant Frédéric Joliot, Service d'Ingénierie Moléculaire des Protéines (SIMOPRO) , Université Paris-Saclay , Gif-sur-Yvette 91190 , France.,SAXS/WAXS, Australian Synchrotron/ANSTO, 800 Blackburn Road, Clayton, VIC 3168, Australia.,Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan.,Department of Molecular Biology, Umeå University, 90187 Umeå, Sweden.,Department of Structural Biochemistry, Max Planck Institute of Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany.,Department of Physiology and Cellular Biophysics, Columbia University, New York, NY 10032.,Institute of Infection and Immunity, School of Medicine, Cardiff University, Cardiff CF14 4XN, UK.,VIB-VUB Center for Structural Biology, VIB, Brussels, Belgium.,National Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences Center for Excellence in Molecular Plant Sciences, Shanghai Center for Plant Stress Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 201602 Shanghai, China; jacobsen@ucla.edu jmdu@sibs.ac.cn.,CAS Center for Excellence in Biomacromolecules, Beijing 100101, China.,The Key Laboratory of Biomedical Information Engineering of Ministry of Education, Institute of Health and Rehabilitation Science, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an 710049, China.,NeCEN, Gorlaeus Laboratories, Leiden University, 2333 CC Leiden, Netherlands.,MOH Key Laboratory of Medical Virology, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.,Institute for Biochemistry and Molecular Biology, University of Hamburg, 20146 Hamburg, Germany.,Institute of Biomedical Sciences, Academia Sinica, Taipei, 115, Taiwan.,Department of Refractory Viral Infections, National Center for Global Health and Medicine Research Institute, Tokyo, Japan hiroaki.mitsuya2@nih.gov.,Genome and Systems Biology Degree Program, National Taiwan University and Academia Sinica, Taipei, 106, Taiwan.,Department of Infectious Diseases and Microbiology , University of Lübeck , 23562 Lübeck , Germany.,Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul 02841, South Korea.,Crystalgenomics, Inc., 5F, Tower A, Korea Bio Park 700, Daewangpangyo-ro, Bundang-gu, Seongnam-si, Gyeonggi-do 13524, South Korea.,Schaller Research Group at the University of Heidelberg and the DKFZ, Heidelberg, Germany.,National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China. shaofeng@nibs.ac.cn.,Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, 300, Taiwan.,School of Life Sciences, University of Science and Technology of China, Hefei, 230026, China.,Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom.,INSERM, U1108, Paris, France.,Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan. nisimasu@bs.s.u-tokyo.ac.jp nureki@bs.s.u-tokyo.ac.jp.,National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.,Max Planck Institute of Biochemistry , 82152 Martinsried , Germany.,Department of Biophysics, Bose Institute, Kolkata, 700054, India.,Institute of Oceanography, Minjiang University, 350108 Fuzhou, China.,State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China.,Department of Biology, New York University, New York, NY 10003.,Dipartimento di Scienze della Terra , Università di Pisa , via Santa Maria 53 , 56126 Pisa , Italy.,Array BioPharma, Inc., 3200 Walnut Street, Boulder, Colorado 80301, United States.,Laboratory Molecular and Cellular Signaling, Department Cellular and Molecular Medicine, Campus Gasthuisberg O/N-I Bus 802, Herestraat 49 3000 Leuven, Belgium.,Research Division, Chugai Pharmaceutical Co., Ltd., Kanagawa, Japan.,University of Chinese Academy of Sciences, Beijing 100049, China.,Genmab, Yalelaan 60, 3584 CM Utrecht, Netherlands. t.sharp@lumc.nl p.w.h.i.parren@lumc.nl p.gros@uu.nl.,School of Nanoscience and Technology, IIT Kharagpur, Kharagpur, 721302, India. Electronic address: anupam.midya@iitkgp.ac.in.,MRC Protein Phosphorylation and Ubiquitylation Unit, University of Dundee, Dundee, UK. s.s.virdee@dundee.ac.uk.,D3-PharmaChemistry, Istituto Italiano di Tecnologia, Via Morego 30, 16163, Genova, Italy.,Maurice Wilkins Centre for Molecular Biodiscovery, University of Auckland, Auckland 1142, New Zealand.,RNA Therapeutics Institute and Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, United States.,Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA; NSLS-II, Brookhaven National Laboratory, Upton, NY 11973, USA.,Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, 100093 Beijing, China.,Institute of Medical Microbiology and Hygiene, University of Regensburg, Regensburg, Germany.,Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK. radu@mrc-lmb.cam.ac.uk.,State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Plant Protection, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.,Institute of Fundamental Sciences and the Riddet Institute, Massey University, Palmerston North 4442, New Zealand.,University of Chinese Academy of Sciences , No. 19 Yuquan Road , Beijing 100049 , China.,Institute of Technology, University of Tartu, 50411 Tartu, Estonia.,School of Pharmaceutical Sciences , Sun Yat-Sen University , Guangzhou 510006 , China.,Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom; Institute for Evolution and Biodiversity, University of Münster, Hüfferstrasse 1, D-48149 Münster, Germany.,Research Institute for Microbial Diseases, Osaka University, 3-1 Yamadaoka, Suita, Osaka 565-0871, Japan.,Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, China.,Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, 100093 Beijing, China; suisf@mail.tsinghua.edu.cn shen@cc.okayama-u.ac.jp.,Institute of Neuropathology, University of Zurich, Switzerland.,Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138.,Department of Biological Sciences, Purdue University, West Lafayette, Indiana, USA mr@purdue.edu.,Institute for Genetics, University of Cologne, Cologne, Germany.,Tsinghua Institute of Multidisciplinary Biomedical Research, Tsinghua University, Beijing, China. shaofeng@nibs.ac.cn.,Department of Medical Laboratories Technology, College of Applied Medical Sciences, Jazan University, Jazan, Saudi Arabia.,Institute of Chemistry, Centre of Arts, Humanities and Sciences, University of Debrecen, Hungary.,Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom. Electronic address: fh111@cam.ac.uk.,Department of Infectious Diseases, Virology, University of Heidelberg, Heidelberg, Germany.,College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.,National Institute of Biological Sciences, Beijing, China. shaofeng@nibs.ac.cn.,Institute for Advanced Biosciences, Keio University, 14-1 Baba-cho, Tsuruoka, Yamagata 997-0035, Japan.,University of Lübeck , 23562 Lübeck , Germany.,School of Nanoscience and Technology, IIT Kharagpur, Kharagpur, 721302, India.,Centro de Química Estrutural, Instituto Superior Técnico , Universidade de Lisboa , Av. Rovisco Pais 1 , 1049-001 Lisboa , Portugal.,Department of Cellular Logistics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.,Biology Department, Brookhaven National Laboratory, Upton, NY 11793.,Department of Clinical Sciences, Kumamoto University Hospital, Kumamoto, Japan.,MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK. radu@mrc-lmb.cam.ac.uk.,Department of Physics, IIT Kharagpur, Kharagpur, 721302, India.,From the Department of Chemistry and Biochemistry, rclubb@mbi.ucla.edu.,MRC Protein Phosphorylation and Ubiquitylation Unit, University of Dundee, Dundee, UK.,Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences , Guangzhou 510530 , China.,School of Pharmaceutical Sciences, Sun Yat-sen University, Guangzhou, 510006, China.,Institute for Biochemistry and Molecular Biology, University of Hamburg, 20146 Hamburg, Germany; daniel.wilson@chemie.uni-hamburg.de.,McGovern Institute for Brain Research, Cambridge, MA 02139, USA.,Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA 90095.,Department of Physiology and Cellular Biophysics, Columbia University, New York, NY 10032; wah2@cumc.columbia.edu yuhang.chen@genetics.ac.cn.,Beijing Mingde Zhengkang Technologies Co., Ltd., Beijing, China.,New York Consortium on Membrane Protein Structure, New York Structural Biology Center, New York, NY 10027, USA.,Department of Chemistry, National Tsing Hua University, Hsinchu, 300, Taiwan.,Department of Psychiatry, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA; Division of Molecular Therapeutics, New York State Psychiatric Institute, New York, NY 10032, USA. Electronic address: mq2102@cumc.columbia.edu.,Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095.,Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul 02841, South Korea. Electronic address: chahong@korea.ac.kr.,Department of Immunohematology and Blood Transfusion, Leiden University Medical Center, Albinusdreef 2, 2333 ZA Leiden, Netherlands.,Helmholtz Centre for Infection Research , 38124 Braunschweig , Germany.,Genome and Systems Biology Degree Program, National Taiwan University and Academia Sinica, Taipei, 106, Taiwan. andyhsu@ntu.edu.tw.,Department of Biology, Southern University of Science and Technology of China, Shenzhen, 518055 Guangdong, China.,School of Biological Sciences , Nanyang Technological University , 639798 Singapore.,Departments of Chemistry and Department of Medicinal Chemistry, Purdue University, West Lafayette, IN, United States.,Biomolecular Engineering Lab, Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Piazza Leonardo da Vinci 32, 20133, Milano, Italy. alfonso.gautieri@polimi.it.,Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Department of Chemistry, Faculty of Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, Netherlands. t.sharp@lumc.nl p.w.h.i.parren@lumc.nl p.gros@uu.nl.,Genmab, Yalelaan 60, 3584 CM Utrecht, Netherlands.,Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032.,Research Division, Chugai Pharmaceutical Co., Ltd., Kanagawa, Japan tanaka.hiroshi@chugai-pharm.co.jp.,Mirati Therapeutics, Inc., 9393 Towne Centre Drive, Suite 200, San Diego, California 92121, United States.,Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.,Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115; andrew_kruse@hms.harvard.edu.,Center for Nano Science and Technology @Polimi, Istituto Italiano di Tecnologia, Via G. Pascoli 70/3, 20133, Milano, Italy.,Manufacturing, Commonwealth Scientific and Industrial Research Organization (CSIRO) , Clayton , Vic 3168 , Australia.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China.,MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Key Laboratory of Chemical Biology of Fujian Province, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China.,Department of Biophysics, Bose Institute, Kolkata, 700054, India. Electronic address: bhunia@jcbose.ac.in.,Department of Biotechnology, IIT Madras, Chennai, 600036, India.,Division of Gene Regulation and Expression, School of Life Sciences, University of Dundee, Dundee, UK.,Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.,Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom; Department of Chemistry, Organic & Bioorganic Chemistry, University of Graz, Heinrichstrasse 28, A-8010 Graz, Austria.,State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, China syf@mail.hzau.edu.cn.,Department of Biochemistry, Duke University School of Medicine, Durham, United States.,State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; wah2@cumc.columbia.edu yuhang.chen@genetics.ac.cn.,Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA. kwmiller@mgh.harvard.edu.,Department of Biology, Molecular Basis of Disease Program, Department of Computer Science, and Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States.,School of Life Science , Huizhou University , Huizhou 516007 , China.,Biomolecular Interaction Centre and School of Physical and Chemical Sciences, University of Canterbury, Christchurch 8041, New Zealand emily.parker@vuw.ac.nz g.b.jameson@massey.ac.nz.,Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Department of Chemistry, Faculty of Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, Netherlands.,Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.,Technical University Darmstadt , Alarich-Weiss-Straße 4 , 64287 Darmstadt , Germany.,Department of Chemistry, University of Natural Resources and Life Sciences, Vienna, Austria.,Infection and Immunity Program and Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton, Victoria 3800, Australia.,Department of Microbiology and Immunology, National University of Singapore, 117545 Singapore.,National Institute of Biological Sciences, Beijing, China.,UCLA-DOE Institute of Genomics and Proteomics and.,Laboratory of Biomolecular Research, Division of Biology and Chemistry , Paul Scherrer Institute , 5232 Villigen , Switzerland.,Instituto de Bionanotecnología del NOA, Consejo Nacional de Investigaciones Científicas y Técnicas, Universidad Nacional de Santiago del Estero, G4206XCP Santiago del Estero, Argentina.,Department of Cellular Logistics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany goerlich@mpibpc.mpg.de.,Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA 90095; jacobsen@ucla.edu jmdu@sibs.ac.cn.,Shanghai Public Health Clinical Center and School of Basic Medical Sciences, and Key Laboratory of Medical Molecular Virology of MOE/MOH, Fudan University, Shanghai 200032, China.,Section of Electron Microscopy, Department of Molecular Cell Biology, Leiden University Medical Center, Einthovenweg 20, 2300 RC Leiden, Netherlands. t.sharp@lumc.nl p.w.h.i.parren@lumc.nl p.gros@uu.nl.,Department of Chemistry and Department of Medicinal Chemistry, Purdue University, West Lafayette, Indiana 47907, United States.,State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, China.,AbbVie Inc. , 1 North Waukegan Road, North Chicago, Illinois 60064, United States.,Schaller Research Group at the University of Heidelberg and the DKFZ, Heidelberg, Germany g.hansman@dkfz.de.,Crystalgenomics, Inc., 5F, Tower A, Korea Bio Park 700, Daewangpangyo-ro, Bundang-gu, Seongnam-si, Gyeonggi-do 13524, South Korea; Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul 02841, South Korea.,Department of Pediatrics, Vanderbilt University Medical Center, Nashville, Tennessee, USA.,College of Animal Science and Technology, China Agricultural University, Beijing, China.,Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA.,Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK.,MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Key Laboratory of Chemical Biology of Fujian Province, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China. dhlin@xmu.edu.cn.,Department of Chemistry, Organic & Bioorganic Chemistry, University of Graz, Heinrichstrasse 28, A-8010 Graz, Austria.,Max Planck Institute for Molecular Genetics, Berlin, Germany.,Computational Chemistry and Molecular Biophysics Unit, National Institute on Drug Abuse - Intramural Research Program, National Institutes of Health, Baltimore, MA 21224, USA.,Division of Bioconvergence Analysis, Korea Basic Science Institute, 162 Yeongudangiro Ochang, Cheongwongu, Cheongju, Chungbuk 28119, South Korea.,Division of Viral Disease, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, USA.,Molecular Biology Institute, UCLA, Los Angeles, California 90095.,Division of Molecular Medicine, Bose Institute, Kolkata, 700054, India.,Chemical Biology and Molecular Biophysics, Taiwan International Graduate Program, Academia Sinica., Taipei, 115, Taiwan.,Institute of Biomedical Sciences, Academia Sinica, Taipei, 115, Taiwan. bmchinp@ibms.sinica.edu.tw.,Lindsley F. Kimball Research Institute, New York Blood Center, New York, NY 10065, USA.,Department of Biochemistry, Faculty of Medicine and Dentistry, University of Alberta, Edmonton, Canada.,Department of Translational Research in Psychiatry , Max Planck Institute of Psychiatry , 80804 Munich , Germany.,MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK. simonasm@mrc-lmb.cam.ac.uk.,Graduate School of Natural Science and Technology, Okayama University, 700-8530 Okayama, Japan.,School of Chemistry, National University of Ireland, University Road, Galway, Ireland.,NHC Key Laboratory of Cancer Proteomics & Laboratory of Structural Biology, Xiangya Hospital, Central South University, Changsha, Hunan 410008, China. yonghenc@163.com.,School of Biological Sciences & Maurice Wilkins Centre , University of Auckland , Auckland 1010 , New Zealand.,Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka 565-0871, Japan.,Structural Biology Brussels, Vrije Universiteit Brussel (VUB), Brussels, Belgium.,Dipartimento di Farmacia , Università di Pisa , Via Bonanno 6 , 56126 Pisa , Italy.,Laboratory for Molecular Infection Medicine Sweden, Umeå University, 90187 Umeå, Sweden.,Department of Microbiology and Immunobiology, Harvard Medical School, Boston, MA 02115.,MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK.,Section of Electron Microscopy, Department of Molecular Cell Biology, Leiden University Medical Center, Einthovenweg 20, 2300 RC Leiden, Netherlands.,Bioscience Division, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.,Guangdong Provincial Key Laboratory of Biocomputing, Joint School of Life Sciences , Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences ; Guangzhou Medical University, Guangzhou 510530 , China.,Institute for Evolution and Biodiversity, University of Münster, Hüfferstrasse 1, D-48149 Münster, Germany.,Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA.,Experimental Retrovilogy Section, HIV and AIDS Malignancy Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD, United States.,Graduate School of Media and Governance, Keio University, 5322 Endo, Fujisawa, Kanagawa 252-0882, Japan.,School of Pharmaceutical Sciences , Jilin University , No.1266 Fujin Road , Chaoyang District, Changchun , Jilin 130021 , China.,Department of Chemistry, University of Waterloo, Waterloo, Ontario, N2L3G1, Canada.,Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115.,Synchrotron SOLEIL , L'Orme des Merisiers, Saint-Aubin, BP 48, 91192 Gif-sur-Yvette , France.,Department of Biochemistry and Cellular Biology, Geisel School of Medicine at Dartmouth, Hanover, New Hampshire, USA.,From the Department of Chemistry and Biochemistry.,Structural Genomics Consortium, University of Toronto , 101 College Street, Toronto, ON M5G 1L7, Canada.,University of Chinese Academy of Sciences, 100049 Beijing, China.,Department of Refractory Viral Infections, National Center for Global Health and Medicine Research Institute, Tokyo, Japan.,Computational Chemistry and Molecular Biophysics Unit, National Institute on Drug Abuse - Intramural Research Program, National Institutes of Health, Baltimore, MA 21224, USA. Electronic address: lei.shi2@nih.gov.,Department of Pharmacy, Uppsala University, SE-75232, Uppsala, Sweden; Department of Pharmacy, University of Copenhagen, DK-2100, Copenhagen, Denmark. Electronic address: martin.malmsten@farmaci.uu.se.,Biomolecular Interaction Centre and School of Physical and Chemical Sciences, University of Canterbury, Christchurch 8041, New Zealand.,Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.,Department of Systems Biology, Harvard Medical School, Boston, MA 02115.,Technische Universität Braunschweig , 38106 Braunschweig , Germany.,Molecular and Computational Biology Program, Department of Biological Sciences and Department of Chemistry, University of Southern California, Los Angeles, California 90089, USA.,Department of Agricultural Chemistry, National Taiwan University, Taipei, 106, Taiwan. andyhsu@ntu.edu.tw.,National Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences Center for Excellence in Molecular Plant Sciences, Shanghai Center for Plant Stress Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 201602 Shanghai, China.,Pasteur Institute, Viral Pathogenesis Unit, Paris, France.,Protein Crystal Analysis Division, Japan Synchrotron Radiation Research Institute, Hyogo, Japan.,Virus Ecology Unit, Rocky Mountain Laboratories, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Hamilton, Montana, USA.,Guangzhou Regenerative Medicine and Health Guangdong Laboratory (GRMH-GDL) , Guangzhou 510530 , China.,State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, 100084 Beijing, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
soluble cytochrome b562, lipid II flippase MurJ chimera
A
614Escherichia coli (strain K12)Escherichia coli
This entity is chimeric
Mutation(s): 0 
Gene Names: murJ (mviN, yceN), cybC
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Multi-Drug Efflux Transporters
Protein: 
MurJ lipid II flippase
Find proteins for P0AF16 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AF16
Find proteins for P0ABE7 (Escherichia coli)
Go to UniProtKB:  P0ABE7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.280 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 113.954α = 90.00
b = 118.036β = 90.00
c = 128.067γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
MR-Rosettaphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2018-02-05 
  • Released Date: 2018-06-27 
  • Deposition Author(s): Zheng, S., Kruse, A.C.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesU19AI109764

Revision History 

  • Version 1.0: 2018-06-27
    Type: Initial release
  • Version 1.1: 2018-07-04
    Type: Data collection, Database references