6CP2

SidC in complex with UbcH7~Ub


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.210 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Insights into the ubiquitin transfer cascade catalyzed by theLegionellaeffector SidC.

Wasilko, D.J.Huang, Q.Mao, Y.

(2018) Elife 7: --

  • DOI: 10.7554/eLife.36154
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The causative agent of Legionnaires' disease, <i>Legionella pneumophila </i>, delivers more than 330 virulent effectors to its host to establish an intracellular membrane-bound organelle called the <i>Legionella </i> containing vacuole. Among the a ...

    The causative agent of Legionnaires' disease, Legionella pneumophila , delivers more than 330 virulent effectors to its host to establish an intracellular membrane-bound organelle called the Legionella containing vacuole. Among the army of Legionella effectors, SidC and its paralog SdcA have been identified as novel bacterial ubiquitin (Ub) E3 ligases. To gain insight into the molecular mechanism of SidC/SdcA as Ub ligases, we determined the crystal structures of a binary complex of the N-terminal catalytic SNL domain of SdcA with its cognate E2 UbcH5C and a ternary complex consisting of the SNL domain of SidC with the Ub-linked E2 UbcH7. These two structures reveal the molecular determinants governing the Ub transfer cascade catalyzed by SidC. Together, our data support a common mechanism in the Ub transfer cascade in which the donor Ub is immobilized with its C-terminal tail locked in an extended conformation, priming the donor Ub for catalysis.


    Organizational Affiliation

    Department of Medicine , University of Wisconsin-Madison , 3341 Microbial Sciences Building, 1550 Linden Dr. , Madison , Wisconsin 53706 , United States.,Division of Hematology, Department of Medicine, The Ohio State University, Columbus, Ohio. rosa.lapalombella@osumc.edu john.byrd@osumc.edu.,The RIKEN SPring-8 Center, 1-1-1 Koto, Sayo-cho, Sato-gun, Hyogo, 678-5248, Japan.,School of Life Sciences, Jawaharlal Nehru University, Delhi 110067, India.,University of Chinese Academy of Sciences, Beijing, 100049, China; State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China. Electronic address: lidefeng@im.ac.cn.,Northern Institute for Cancer Research, Chemistry, School of Natural and Environmental Sciences , Newcastle University , Bedson Building , Newcastle upon Tyne NE1 7RU , U.K.,Structural Genomics Consortium, University of Toronto, Toronto, ON M5G 1L7, Canada.,Department of Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA.,Stanford University School of Medicine, Department of Molecular and Cellular Physiology, Clark Center, Stanford, CA, 94305-5345, USA. rashed.chowdhury@stanford.edu.,Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA 92093, USA.,Departments of Biochemistry and Biophysics and Neurochemistry, Arrhenius Laboratories for Natural Sciences, Stockholm University, SE-106 91 Stockholm, Sweden.,Biomedicine Discovery Institute, Monash University, Clayton, VIC 3800, Australia.,Departments of Chemistry and Bacteriology, University of Wisconsin-Madison, 1550 Linden Drive, Madison, WI, 53706, USA.,Department of Pathology, Microbiology and Immunology, Vanderbilt University School of Medicine, Nashville, Tennessee, United States of America.,CAS Center for Excellence in Molecular Cell Science, Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, University of Science and Technology of China, Hefei, 230027, China. sunlf17@ustc.edu.cn.,The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, California, United States of America.,Ministry of Education Key Laboratory of Protein Sciences, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China.,Department of Clinical Medicine, Aarhus University, P.P. Oerumsgade 11, DK-8000, Aarhus C, Denmark.,Small Molecule Screening Facility, Carbone Cancer Center , University of Wisconsin-Madison , 1111Highland Ave. , Madison , Wisconsin 53705 , United States.,Barbara Davis Center for Childhood Diabetes, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.,Department of Chemistry, Chonnam National University, Gwangju, 61186, Republic of Korea.,Laboratory of Molecular Plant Physiology, Department of Pharmacy and Biotechnology, University of Bologna, via Irnerio 42, 40126 Bologna, Italy. mirko.zaffagnini3@unibo.it.,Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716; zzhuang@udel.edu ytong@uwindsor.ca.,INSERM U1163 and CNRS 8254, Imagine Institute, Université Paris Saclay, 91190 Paris, France.,Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, 3584 CH, Utrecht, The Netherlands.,Department of Pediatrics, Columbia University Medical Center, New York, NY 10032, USA.,Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, Unité Mixte de Recherche 8226 CNRS Sorbonne Université, 13 rue Pierre et Marie Curie, 75005 Paris, France. michelet@ibpc.fr.,Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, Tennessee, United States of America.,Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, UK g.l.challis@warwick.ac.uk.,Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, United States.,Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA 02142, USA.,KU Leuven, Department of Pharmaceutical and Pharmacological Sciences, Biocrystallography, Herestraat 49 BOX 822, 3000 Leuven, Belgium.,From the Department of Biochemistry and Molecular Biology, ncjs@mail.ubc.ca.,Center for Biostatistics, The Ohio State University, Columbus, Ohio.,Division of Hematology, Department of Medicine, The Ohio State University, Columbus, Ohio.,3Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences and School of Medicine, Tsinghua University, Beijing, 100084 China.,5Present Address: Department of Molecular Biology, Princeton University, Princeton, NJ 08544 USA.,Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA 02142, USA. fwagner@broadinstitute.org kimberly_stegmaier@dfci.harvard.edu.,iHuman Institute, ShanghaiTech University, Shanghai, China. xufei@shanghaitech.edu.cn.,the Centre for Blood Research, and.,Department of Pathology, St. Olavs Hospital, Trondheim, Norway.,School of Medicine and Dentistry , University of Rochester Medical Center , 601 Elmwood Ave. , Rochester , New York 14620 , United States.,Koch Institute for Integrative Cancer Research at MIT, Massachusetts Institute of Technology, Cambridge, MA 02142, USA.,Medical Research Council Laboratory of Molecular Biology, Cambridge, United Kingdom.,School of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, Australia.,KU Leuven, Department of Chemistry, Molecular Design and Synthesis, Celestijnenlaan 200F BOX 2404, 3001 Leuven, Belgium.,Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Gif-sur-Yvette, France.,Centre for Advanced Imaging, The University of Queensland, St. Lucia, QLD 4072, Australia.,Novartis Institutes for BioMedical Research , Novartis Campus , CH-4056 Basel , Switzerland.,LOEWE Center for Synthetic Microbiology, Philipps University Marburg, Hans-Meerwein Strasse 6, Marburg 35032, Germany.,Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA.,Division of Chemistry, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan.,Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA; Department of Veterinary Pathobiology, College of Veterinary Medicine, University of Missouri, Columbia, MO 65211, USA.,LCM, CNRS, Ecole Polytechnique , Université Paris-Saclay , 91128 Palaiseau Cedex , France.,Department of Biological Chemistry & Molecular Pharmacology, Harvard Medical School, Boston, MA, 02115, USA. Stephen_Blacklow@hms.harvard.edu.,Department of Cell & Developmental Biology, Biocenter, University of Würzburg, Würzburg, 97074, Germany.,Department of Medicine , Vanderbilt-Ingram Cancer Center , Nashville , Tennessee 37232 , United States.,Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716.,National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China; University of Chinese Academy of Sciences, Beijing, 100049, China. Electronic address: dcwang@ibp.ac.cn.,Plexxikon Inc., Berkeley, California.,School of Life Science and Technology, ShanghaiTech University, Shanghai, China.,Department of Biochemistry and Biophysics, Stockholm University, S-106 91 Stockholm, Sweden.,Department of Chemistry and iNANO, Aarhus University, Gustav Wieds Vej 14, DK-8000, Aarhus C, Denmark.,Department of Molecular Biology and Genetics, Aarhus University, Aarhus, 8000, Denmark.,INSERM U944, Institute of Hematology, St. Louis Hospital, 75010 Paris, France.,Promega Corporation, 2800 Woods Hollow Road, Madison, WI 53711, USA.,School of Life Science and Technology, ShanghaiTech University, Shanghai, China. xufei@shanghaitech.edu.cn.,Queensland Brain Institute, The University of Queensland, St. Lucia, QLD 4072, Australia.,Division of Infection and Immunity, University College London, London, United Kingdom.,National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China.,MRC, Protein Phosphorylation and Ubiquitylation Unit, University of Dundee, Dundee, U.K.,Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA; Department of Molecular Microbiology & Immunology, School of Medicine, University of Missouri, Columbia, MO 65211, USA; Department of Biochemistry, University of Missouri, Columbia, MO 65211, USA.,Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China.,Institut für Biologie, Strukturbiologie/Biochemie, Humboldt-Universität zu Berlin, Germany.,Northern Institute for Cancer Research, Medical School , Newcastle University , Paul O'Gorman Building, Framlington Place , Newcastle upon Tyne NE2 4HH , U.K.,Laboratoire des biomolécules, LBM, Département de chimie , École normale supérieure, PSL University, Sorbonne Université, CNRS , 75005 Paris , France.,Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, UK.,Max Planck-Institute for Biochemistry, 82152, Martinsried, Germany.,Division of Hematology/Oncology, Boston Children's Hospital, Boston, MA 02115, USA.,Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA. Stephen_Blacklow@hms.harvard.edu.,Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02215, USA.,ARC Centre of Excellence in Advanced Molecular Imaging, School of Medical Sciences, University of New South Wales, Sydney, Australia.,Department of Dermatology, Aarhus University Hospital, P.P. Oerumsgade 11, DK-8000, Aarhus C, Denmark.,Department of Cell and Developmental Biology , Vanderbilt University School of Medicine , Nashville , Tennessee 37232 , United States.,Institute of Biological Chemistry, Academia Sinica, 128, Academia Road, Sec. 2, Nankang, Taipei 115, Taiwan.,Department of Hematology and Oncology , Vanderbilt University School of Medicine , Nashville , Tennessee 37232 , United States.,Key Laboratory of Receptor Research, VARI-SIMM Center, Center for Structure and Function of Drug Targets, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, China.,State Key Laboratory of Membrane Biology, Beijing, 100084 China.,Department of Molecular Pharmacology and Experimental Therapeutics, Mayo Clinic, Scottsdale, AZ, USA.,Leidos Biomedical Research , Frederick National Laboratory for Cancer Research , Frederick , Maryland 21701 , United States.,Department of Chemistry "Giacomo Ciamician", University of Bologna, via Selmi 2, 40126 Bologna, Italy. simona.fermani@unibo.it.,Department of Clinical Medicine, Aarhus University, P.P. Oerumsgade 11, DK-8000, Aarhus C, Denmark. lars.iversen@clin.au.dk.,the Department of Microbiology and Immunology, The University of British Columbia, Vancouver, British Columbia V6T 1Z3, Canada and.,School of Molecular Sciences, The University of Western Australia, Perth, Australia.,The ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley, Australia.,Center for Drug Design, Academic Health Center, University of Minnesota, Minneapolis, MN 55455, USA.,Department of Medicine, University of California San Diego, La Jolla, California, United States of America.,Department of Biomedical Research, National Jewish Health, Denver, CO 80206, USA. kapplerj@njhealth.org shaodong.dai@ucdenver.edu.,Department of Chemistry, Philipps University Marburg, Hans-Meerwein Strasse 4, Marburg 35032, Germany.,Medical Research Council Protein Phosphorylation Unit, School of Life Sciences, Wellcome Trust Building, University of Dundee, Dow Street, Dundee, DD1 5EH, UK.,Department of Chemistry and Biochemistry, University of Windsor, Windsor, ON N9B 3P4, Canada.,KU Leuven, Rega Institute for Medical Research, Medicinal Chemistry, Herestraat 49 BOX 1030, 3000 Leuven, Belgium. Electronic address: arthur.vanaerschot@kuleuven.be.,Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA; Department of Molecular Microbiology & Immunology, School of Medicine, University of Missouri, Columbia, MO 65211, USA.,Cayman Chemical Co., Ann Arbor, MI 48108, USA.,KU Leuven, Rega Institute for Medical Research, Medicinal Chemistry, Herestraat 49 BOX 1030, 3000 Leuven, Belgium; KU Leuven, Department of Pharmaceutical and Pharmacological Sciences, Biocrystallography, Herestraat 49 BOX 822, 3000 Leuven, Belgium.,Department of Immunology and Microbiology, School of Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.,Department of Dermatology, Aarhus University Hospital, P.P. Oerumsgade 11, DK-8000, Aarhus C, Denmark. lars.iversen@clin.au.dk.,Benaroya Research Institute, Seattle, WA 98101, USA.,Institute for Molecular Bioscience, The University of Queensland, St. Lucia, QLD 4072, Australia.,Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA.,National Cancer Institute , Bethesda , Maryland 20892 , United States.,Danish Research Institute of Translational Neuroscience - DANDRITE, Nordic-EMBL Partnership for Molecular Medicine, Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 10C, DK-8000, Aarhus C, Denmark.,Novartis Institutes for Biomedical Research, Cambridge, MA, 02139, USA. Michael.Acker@novartis.com.,the Division of Infectious Disease, Department of Medicine, San Francisco General Hospital, San Francisco, California 94110.,Biomedical Sciences Research Complex, University of St Andrews, North Haugh, St Andrews KY16 9ST, UK.,Science for Life Laboratory, Department of Oncology-Pathology, Karolinska Institutet, S-171 76 Stockholm, Sweden.,Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, United States.,iHuman Institute, ShanghaiTech University, Shanghai, China.,Department of Hematology, Hôpital Necker, Assistance Publique Hôpitaux de Paris, University Paris Descartes, 75006 Paris, France.,Structural Biology and Biochemistry program, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.,Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.,School of Life Sciences, Jawaharlal Nehru University, Delhi 110067, India sgourinath@mail.jnu.ac.in.,William S. Middleton Memorial Veterans Hospital , 2500 Overlook Terr. , Madison , Wisconsin 53705 , United States.,Centre de Génomique Fonctionnelle Bordeaux, Université Bordeaux, F-33076, Bordeaux, France.,Department of Biomedical Research, National Jewish Health, Denver, CO 80206, USA.,Department of Medical Microbiology and Immunology , University of Wisconsin-Madison , 4203 Microbial Sciences Building, 1550 Linden Dr. , Madison , Wisconsin 53706 , United States.,Bioorganic Chemistry and Bio-Crystallography laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, 39100 Bolzano, Italy. Electronic address: stefano.benini@unibz.it.,Division of Cell Signaling and Immunology and University of Dundee, Dow Street, Dundee, DD1 5EH, UK.,Department of Pharmacology and Toxicology, University of Toronto, Toronto, ON M5S 1A8, Canada.,Xtal BioStructures Inc., Natick, MA 01760, USA.,Department of Pharmacology, Monash University, Clayton, VIC 3800, Australia.,Department of Pediatrics, Vanderbilt University Medical Center, Nashville, Tennessee, United States of America.,Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne 3083, Australia. Electronic address: M.Maher@latrobe.edu.au.,Department of Biochemistry and Molecular Genetics, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.,Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing, 100084, China.,Center for Drug Design, Academic Health Center, University of Minnesota, Minneapolis, MN 55455, USA. Electronic address: wangx472@umn.edu.,Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, United States of America.,The Department of Chemistry, University of Oxford, Mansfield Road, Oxford, OX1 3TA, UK. rashed.chowdhury@stanford.edu.,Beijing Advanced Innovation Center for Structural Biology, Beijing, 100084 China.,Department of Biomedical Informatics, The Ohio State University, Columbus, Ohio.,Chemical Synthesis Core, Vanderbilt Institute of Chemical Biology , Vanderbilt University , Nashville , Tennessee 37232 , United States.,The Hamburg Centre for Ultrafast Imaging, Universität Hamburg, Luruper Chaussee 149, Hamburg 22761, Germany.,College of Veterinary Medicine, The Ohio State University, Columbus, Ohio.,HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, China.,KU Leuven, Rega Institute for Medical Research, Medicinal Chemistry, Herestraat 49 BOX 1030, 3000 Leuven, Belgium.,Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, Unité Mixte de Recherche 8226 CNRS Sorbonne Université, 13 rue Pierre et Marie Curie, 75005 Paris, France. lemaire@ibpc.fr.,Department of Bioscience and Biotechnology, Graduate School of Natural Science and Technology, Okayama University, Tsushima-naka, Okayama, 700-8530, Japan.,Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, Unité Mixte de Recherche 8226 CNRS Sorbonne Université, 13 rue Pierre et Marie Curie, 75005 Paris, France. crozet@ibpc.fr.,The Department of Chemistry, University of Oxford, Mansfield Road, Oxford, OX1 3TA, UK.,ESRF, European Synchrotron Radiation Facility, 71 Avenue des Martyrs, Grenoble CS 40220, France.,Departments of Biological Sciences and Chemistry, Bridge Institute, University of Southern California, Los Angeles, CA, USA.,MacCHESS, Cornell University, Ithaca, United States.,Biomedical Center, Ludwig-Maximilians-University Munich (LMU), 82152, Martinsried, Germany.,Medical Research Council Laboratory for Molecular Cell Biology, University College London, London, United Kingdom.,Elettra-Sincrotrone Trieste, S.S. 14 Km 163.5 in Area Science Park, Basovizza, Trieste 34149, Italy.,Structural Genomics Consortium, University of Toronto, Toronto, ON M5G 1L7, Canada; zzhuang@udel.edu ytong@uwindsor.ca.,State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China.,Fisheries College, Guangdong Ocean University, Zhanjiang, 524025 Guangdong, China.,CSIRO Manufacturing, Parkville, Victoria, Australia john.liu@csiro.au.,Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne 3083, Australia.,National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China; University of Chinese Academy of Sciences, Beijing, 100049, China.,Department of Chemistry, Chonnam National University, Gwangju, 61186, Republic of Korea. Electronic address: jsunkim@chonnam.ac.kr.,Department of Biochemistry , Vanderbilt University School of Medicine , 2215 Garland Avenue, 607 Light Hall , Nashville , Tennessee 37232-0146 , United States.,Bio-Pharmaceutical Analysis Section (Bio-PhASe), Department of Pharmacy and Biotechnology, University of Bologna, via Belmeloro 6, 40126 Bologna, Italy. daniele.tedesco@unibo.it.,Department of Pediatric Oncology, Dana-Farber Cancer Institute, Boston, MA 02115, USA.,School of Life Sciences, Tsinghua University, Beijing, 100084, China.,Department of Cell and Molecular Biology , St. Jude Children's Research Hospital , Memphis , Tennessee 38105 , United States.,Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA, 92037, USA.,INSERM U1163 and CNRS 8254, Imagine Institute, Université Sorbonne Paris Cité, Paris, France.,Biocenter, Faculty of Biology, Genetics, Ludwig-Maximilians-University Munich (LMU), 82152, Martinsried, Germany.,Bioinformatics Graduate Program, Boston University, Boston, MA 02215, USA.,Department of Picobiology/Life Science, Graduate School of Life Science, University of Hyogo, 3-2-1 Koto, Kamigori-cho, Ako-gun, Hyogo, 678-1297, Japan.,Department of Food Science and Engineering, Ewha Womans University, Seoul, 03760, Republic of Korea.,Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, Unité Mixte de Recherche 8226 CNRS Sorbonne Université, 13 rue Pierre et Marie Curie, 75005 Paris, France. julien.henri@sorbonne-universite.fr.,Sheffield Cancer Centre, Department of Oncology and Metabolism, University of Sheffield, Sheffield S10 2RX, UK.,Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, 3584 CH, Utrecht, The Netherlands. b.j.c.janssen@uu.nl.,Danish Research Institute of Translational Neuroscience - DANDRITE, Nordic-EMBL Partnership for Molecular Medicine, Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 10C, DK-8000, Aarhus C, Denmark. pn@mbg.au.dk.,EMBL Australia Node, Single Molecule Science, School of Medical Sciences, University of New South Wales, Sydney, Australia.,University of Chinese Academy of Sciences, Beijing, China.,Novartis Institutes for BioMedical Research , Cambridge , Massachusetts 02139 , United States.,Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway.,Moscow Institute of Physics and Technology, Dolgoprudny, Russia.,Leicester Institute of Structural and Chemical Biology and Department of Chemistry, University of Leicester, Lancaster Road, Leicester, LE1 7RH, UK.,School of Chemistry and Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, Victoria 3010, Australia.,4Department of Genetics and Complex Diseases, Harvard T.H. Chan School of Public Health, Boston, MA 02115 USA.,Stanley Center for Psychiatric Research, Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA 02142, USA. fwagner@broadinstitute.org kimberly_stegmaier@dfci.harvard.edu.,CSIRO Manufacturing, Parkville, Victoria, Australia.,Department of Molecular Biology and Genetics, Cornell University, Ithaca, United States.,Helmholtz-Zentrum Berlin, Macromolecular Crystallography (HZB-MX), Germany.,From the Genome Integrity and Structural Biology Laboratory, NIEHS, National Institutes of Health, Research Triangle Park, North Carolina 27709.,Biocenter, Faculty of Biology, Genetics, Ludwig-Maximilians-University Munich (LMU), 82152, Martinsried, Germany. boshart@lmu.de.,From the Department of Biochemistry and Molecular Biology.,Stanley Center for Psychiatric Research, Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, MA 02142, USA.,Department of Chemistry and Chemical Biology, Cornell University, NE-CAT, Advanced Photon Source, Argonne National Laboratory, Argonne, IL 60439, USA.,Institute for Molecular Bioscience, The University of Queensland, St. Lucia, QLD 4072, Australia; l.rash@uq.edu.au glenn.king@imb.uq.edu.au.,Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich, NR47UH, United Kingdom.,From the Genome Integrity and Structural Biology Laboratory, NIEHS, National Institutes of Health, Research Triangle Park, North Carolina 27709 wilson5@niehs.nih.gov.,The Department of Chemistry, University of Oxford, Mansfield Road, Oxford, OX1 3TA, UK. christopher.schofield@chem.ox.ac.uk.,BIOLOG Life Science Institute, 28199, Bremen, Germany.,Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI, 53706, USA.,Novartis Institutes for Biomedical Research, Cambridge, MA, 02139, USA.,School of Biomedical Sciences, The University of Queensland, St. Lucia, QLD 4072, Australia.,Bioorganic Chemistry and Bio-Crystallography laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, 39100 Bolzano, Italy.,Center for Cancer and Cell Biology, Innovation and Integration Program, Van Andel Research Institute, Grand Rapids, MI, USA.,Institute of Cellular and Molecular Radiobiology, Institut François Jacob, CEA, Universités Paris Diderot and Paris-Sud, Fontenay aux Roses, France.,Eshelman School of Pharmacy , University of North Carolina at Chapel Hill , SGC Center for Chemical Biology, 120 Mason Farm Rd. , Chapel Hill , North Carolina 27599 , United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SidC
A
542Legionella pneumophilaMutation(s): 1 
Find proteins for Q6RCR4 (Legionella pneumophila)
Go to UniProtKB:  Q6RCR4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin-conjugating enzyme E2 L3
B
154Homo sapiensMutation(s): 1 
Gene Names: UBE2L3 (UBCE7, UBCH7)
EC: 2.3.2.23
Find proteins for P68036 (Homo sapiens)
Go to Gene View: UBE2L3
Go to UniProtKB:  P68036
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Polyubiquitin-B
C
78Homo sapiensMutation(s): 0 
Gene Names: UBB
Find proteins for P0CG47 (Homo sapiens)
Go to Gene View: UBB
Go to UniProtKB:  P0CG47
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.210 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 101.528α = 90.00
b = 101.528β = 90.00
c = 352.326γ = 120.00
Software Package:
Software NamePurpose
AMoREphasing
HKL-2000data reduction
HKL-2000data scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited States5R01GM116964

Revision History 

  • Version 1.0: 2018-08-01
    Type: Initial release
  • Version 1.1: 2019-02-20
    Type: Author supporting evidence, Data collection