6ES1

Crystal structure of the binding domain from botulinum neurotoxin A2 bound to extracellular domain of human receptor SV2C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal Structure of Botulinum Neurotoxin A2 in Complex with the Human Protein Receptor SV2C Reveals Plasticity in Receptor Binding.

Gustafsson, R.Zhang, S.Masuyer, G.Dong, M.Stenmark, P.

(2018) Toxins (Basel) 10: --

  • DOI: 10.3390/toxins10040153

  • PubMed Abstract: 
  • Botulinum neurotoxins (BoNTs) are a family of highly dangerous bacterial toxins, with seven major serotypes (BoNT/A-G). Members of BoNTs, BoNT/A1 and BoNT/B1, have been utilized to treat an increasing number of medical conditions. The clinical trials ...

    Botulinum neurotoxins (BoNTs) are a family of highly dangerous bacterial toxins, with seven major serotypes (BoNT/A-G). Members of BoNTs, BoNT/A1 and BoNT/B1, have been utilized to treat an increasing number of medical conditions. The clinical trials are ongoing for BoNT/A2, another subtype of BoNT/A, which showed promising therapeutic properties. Both BoNT/A1 and BoNT/A2 utilize three isoforms of synaptic vesicle protein SV2 (SV2A, B, and C) as their protein receptors. We here present a high resolution (2.0 Å) co-crystal structure of the BoNT/A2 receptor-binding domain in complex with the human SV2C luminal domain. The structure is similar to previously reported BoNT/A-SV2C complexes, but a shift of the receptor-binding segment in BoNT/A2 rotates SV2C in two dimensions giving insight into the dynamic behavior of the interaction. Small differences in key residues at the binding interface may influence the binding to different SV2 isoforms, which may contribute to the differences between BoNT/A1 and BoNT/A2 observed in the clinic.


    Organizational Affiliation

    School of Biological Sciences, The University of Auckland, Auckland, New Zealand.,Molecular Partners AG, Wagistrasse 14, 8952, Schlieren, Switzerland. info@molecularpartners.com.,Medicinal Chemistry & Drug Discovery, Department of Pharmacology , University of Oxford , Mansfield Road , Oxford OX1 3QT , U.K.,Department of Molecular Medicine and Pathology, The University of Auckland, Auckland, New Zealand.,Experimental Therapeutics Centre, Agency for Science, Technology and Research (A(∗)STAR), 31 Biopolis way, Nanos, #03-01, Singapore 138669, Singapore; Lee Kong Chian School of Medicine, Nanyang Technological University, EMB 03-07, 59 Nanyang Drive, Singapore 636921, Singapore. Electronic address: knacro@etc.a-star.edu.sg.,Department of Biology and Biotechnology, University of Pavia, Via Ferrata 9, 27100, Pavia, Italy; Department of Mechanistic Cell Biology, Max-Planck Institute of Molecular Physiology, Otto-Hahn-Str. 11, 44227, Dortmund, Germany.,Ipsen Bioinnovation, 102 Park Drive, Milton Park, Abingdon OX14 4RY, UK.,Department of Pharmaceutical Chemistry, Faculty of Pharmacy, University of Belgrade, 450 Vojvode Stepe, 11000, Belgrade, Serbia.,Neuprozyme Therapeutics A/S, 2970 Hörsholm, Denmark. Electronic address: jp@neuprozyme.com.,SARomics Biostructures, 223 63 Lund, Sweden.,Howard Hughes Medical Institute, University of California, Berkeley, CA, USA. doudna@berkeley.edu.,Experimental Therapeutics Centre, Agency for Science, Technology and Research (A(∗)STAR), 31 Biopolis way, Nanos, #03-01, Singapore 138669, Singapore. Electronic address: cbkang@etc.a-star.edu.sg.,Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigori, Ako, Hyogo 678-1297, Japan. yshiro@sci.u-hyogo.ac.jp sawai@sci.u-hyogo.ac.jp.,Department of Pharmacy, Epigenetic Med Chem Lab, University of Salerno, Via Ponte Don Melillo, 84084, Fisciano, SA, Italy.,Medicinal Chemistry, Department of Pharmacy and Pharmacology , University of Bath , Claverton Down , Bath BA2 7AY , U.K.,Department of Biology and Biotechnology, University of Pavia, Via Ferrata 9, 27100, Pavia, Italy.,Department of Pathology, University of Michigan, Ann Arbor, MI, 48109, USA.,Department of Microbiology and Immunology, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA, 30322, USA.,National Research Center for Veterinary Medicine, Luoyang, Henan, China.,Department of Biochemistry, Duke University School of Medicine, Durham, NC, 27710, USA. seok-yong.lee@duke.edu.,Department of Biochemistry and Biophysics, Stockholm University, Stockholm SE-106 91, Sweden.,Experimental Therapeutics Centre, Agency for Science, Technology and Research (A(∗)STAR), 31 Biopolis way, Nanos, #03-01, Singapore 138669, Singapore.,Department of Molecular Medicine, Sapienza University of Rome, Viale Regina Elena 324, 00161, Rome, Italy.,Neuroscience Therapeutic Area, Neurodegeneration Research, Sanofi R&D, Chilly-Mazarin, France.,International AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, USA.,Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya Street 16/10, Moscow 117997, Russian Federation.,Service d'Ingénierie Moléculaire des Protéines (SIMOPRO), CEA, Université Paris-Saclay, Gif-sur-Yvette, France.,Department of Systems Biology, Columbia University, New York, NY, USA. lss8@columbia.edu.,Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), Institut National de la Santé et de la Recherche Médicale (INSERM), U1258/Centre National de la Recherche Scientifique (CNRS), UMR7104/Université de Strasbourg, 67404, Illkirch, France.,The Institute of Scientific and Industrial Research, Osaka University, Ibaraki, Osaka, 567-0047, Japan.,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.,Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), Institut National de la Santé et de la Recherche Médicale (INSERM), U1258/Centre National de la Recherche Scientifique (CNRS), UMR7104/Université de Strasbourg, 67404, Illkirch, France. Electronic address: rochel@igbmc.fr.,Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232.,Department of Biochemistry, Duke University School of Medicine, Durham, NC, 27710, USA.,Department of Molecular Oncology, Genentech, South San Francisco, CA, USA.,Howard Hughes Medical Institute, University of California, Berkeley, CA, USA. enogales@lbl.gov.,Department of Biochemistry and Biophysics, Stockholm University, S-106 91 Stockholm, Sweden. robert.gustafsson@dbb.su.se.,Infection and Immunity Program and Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton, VIC, 3800, Australia.,Synthetic Biology and Bioengineering Research Center, KRIBB, Daejeon, 34141, Republic of Korea. sglee@kribb.re.kr.,MRC Laboratory of Molecular Biology, Cambridge, UK.,Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA.,Department of Chemistry and Technologies of Drugs, Sapienza University of Rome, P. le A. Moro 5, 00185, Rome, Italy; Pasteur Institute - Cenci Bolognetti Foundation, Sapienza Università di Roma, Viale Regina Elena 324, 00161, Rome, Italy. Electronic address: antonello.mai@uniroma1.it.,Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA. enogales@lbl.gov.,Institut de Pharmacologie et de Biologie Structurale, Université de Toulouse, CNRS, Université Paul Sabatier, 31077, Toulouse, France.,Institut du Thorax, Inserm UMR 1087/CNRS UMR 6291, LabEx "Ion Channels, Science and Therapeutics", Nantes, France.,Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, CA 92037, USA.,MRC Laboratory of Molecular Biology, Cambridge, UK. scheres@mrc-lmb.cam.ac.uk.,Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA. doudna@berkeley.edu.,Department of Biosystems and Bioengineering, KRIBB School of Biotechnology, University of Science and Technology, Daejeon, 34113, Republic of Korea. sglee@kribb.re.kr.,INSERM, UMR 1100, "Centre d'Etude des Pathologies Respiratoires", 37032 Tours, France; Université de Tours, 37032 Tours, France. Electronic address: brice.korkmaz@inserm.fr.,Vollum Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA.,Smartox Biotechnology, Saint-Egrève, France.,Centre of Advanced Study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India. Electronic address: nandhanu@gmail.com.,Lee Kong Chian School of Medicine, Nanyang Technological University, EMB 03-07, 59 Nanyang Drive, Singapore 636921, Singapore; NTU Institute of Structural Biology, Nanyang Technological University, EMB 06-01, 59 Nanyang Drive, Singapore 636921, Singapore.,Max-Planck-Institute for Biochemistry, Planegg, Germany.,Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235; james.crowe@vanderbilt.edu jens.meiler@vanderbilt.edu.,Department of Urology, Boston Children's Hospital, Department of Microbiology and Immunobiology and Department of Surgery, Harvard Medical School, Boston, MA 02115, USA. sicai.zhang@childrens.harvard.edu.,Integrated Drug Discovery-High Content Biology, Sanofi R&D, Vitry-sur-Seine, France.,Department of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.,Department of Urology, Boston Children's Hospital, Department of Microbiology and Immunobiology and Department of Surgery, Harvard Medical School, Boston, MA 02115, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, USA. doudna@berkeley.edu.,Vanderbilt Mass Spectrometry Research Center and Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232.,Laboratory of Biomolecular Research, Paul Scherrer Institut, 5232, Villigen, Switzerland. kurt.ballmer-hofer@unibas.ch.,Ipsen Innovation, 5 Avenue du Canada, 91940 Les Ulis, France.,Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461.,Laboratory of Biomolecular Research, Paul Scherrer Institut, 5232, Villigen, Switzerland.,Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany; baumeist@biochem.mpg.de.,Alchemical Dynamics s.r.l., 00125, Rome, Italy.,Department of Molecular Biology, Genentech, South San Francisco, CA, USA.,Department of Biomolecular Resources, Genentech, South San Francisco, CA, USA.,Center for Structural Biology, Vanderbilt University, Nashville, TN 37235.,Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235.,Department of Biochemistry and Biophysics, Stockholm University, S-106 91 Stockholm, Sweden. stenmark@dbb.su.se.,Department of Biology and Biotechnology, University of Pavia, Via Ferrata 9, 27100, Pavia, Italy. Electronic address: andrea.mattevi@unipv.it.,Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA. lss8@columbia.edu.,Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, Jiangsu Province 210009, China.,Laboratory of Chemical Biology and Institute for Complex Molecular Systems, Department of Biomedical Engineering, Eindhoven University of Technology, Den Dolech 2, 5612, AZ, Eindhoven, The Netherlands.,Comprehensive Pneumology Center, Institute of Lung Biology and Disease, German Center for Lung Research (DZL), 81377 Munich, Germany; Max Planck Institute of Neurobiology, 82152 Planegg-Martinsried, Germany.,Institut des Neurosciences Paris-Saclay (Neuro-PSI), UMR CNRS/Université Paris-Sud 9197, Université Paris-Saclay, Gif-sur-Yvette, France.,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. enogales@lbl.gov.,Brigham and Women's Hospital Division of Rheumatology, Immunology and Allergy and Harvard Medical School, Boston, MA, 02115, USA.,Department of Pathology and Laboratory Medicine, Indiana University School of Medicine, Indianapolis, IN, USA.,Department of Systems and Computational Biology, Albert Einstein College of Medicine, Bronx, NY 10461.,Department of Molecular Medicine, Sapienza University of Rome, Viale Regina Elena 324, 00161, Rome, Italy; Gene Expression Laboratory, National Institute for Infectious Diseases "Lazzaro Spallanzani" I.R.C.C.S., Rome, Italy.,Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), Institut National de la Santé et de la Recherche Médicale (INSERM), U1258/Centre National de la Recherche Scientifique (CNRS), UMR7104/Université de Strasbourg, 67404, Illkirch, France. Electronic address: kieffer@igbmc.fr.,Integrated Drug Discovery-Synthetic Molecular Design, Sanofi R&D, Frankfurt, Germany.,Faculty of Chemistry and Pharmacy, Ludwig-Maximilians-University, Munich, Germany.,Stratingh Institute for Chemistry, University of Groningen, 9747AG, Groningen, The Netherlands.,Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, NC 27709, USA.,RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan.,Department of Medicine, Division of Infectious Diseases, Albert Einstein College of Medicine, Bronx, NY 10461; johanna.daily@einstein.yu.edu vern.schramm@einstein.yu.edu.,National University of Singapore (Suzhou) Research Institute, Suzhou, Jiangsu, China.,Department of Microbiology, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, Netherlands.,Lee Kong Chian School of Medicine, Nanyang Technological University, EMB 03-07, 59 Nanyang Drive, Singapore 636921, Singapore; NTU Institute of Structural Biology, Nanyang Technological University, EMB 06-01, 59 Nanyang Drive, Singapore 636921, Singapore. Electronic address: luodahai@ntu.edu.sg.,Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA. bh6@cumc.columbia.edu.,Brigham and Women's Hospital Division of Rheumatology, Immunology and Allergy and Harvard Medical School, Boston, MA, 02115, USA. I.vanRhijn@uu.nl.,Department of Chemistry and Technologies of Drugs, Sapienza University of Rome, P. le A. Moro 5, 00185, Rome, Italy.,Department of Integrative Structural and Computational Biology, The Scripps Research Insititute, La Jolla, CA 92037, USA; Scripps Center for HIV/AIDS Vaccine Immunology & Immunogen Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA; International AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA.,Molecular Biophysics Group, Institute of Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK.,Department of Systems Biology, Columbia University, New York, NY, USA. bh6@cumc.columbia.edu.,Simons Electron Microscopy Center, New York Structural Biology Center, The National Resource for Automated Molecular Microscopy, New York, NY, USA.,Vaccine Research Center, NIH, Bethesda, MD 20892, USA.,Integrative Omics, Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.,Department of Early Discovery Biochemistry, Genentech, South San Francisco, CA, USA.,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. doudna@berkeley.edu.,Institute of Pharmaceutical Chemistry, Philipps-University Marburg, Marbacher Weg 6, 35032, Marburg, Germany.,Department of Biological Sciences and Centre for Bioimaging Sciences, National University of Singapore, Singapore.,Faculty of Chemistry, University of Gdansk, 80-308 Gdansk, Poland.,Synthetic Biology and Bioengineering Research Center, KRIBB, Daejeon, 34141, Republic of Korea.,School of Biological Sciences, The University of Auckland, Auckland, New Zealand p.young@auckland.ac.nz n.moreland@auckland.ac.nz.,Department of Pathology, Genentech, South San Francisco, CA, USA.,INSERM, UMR 1100, "Centre d'Etude des Pathologies Respiratoires", 37032 Tours, France; Université de Tours, 37032 Tours, France.,Australian Research Council Centre of Excellence in Advanced Molecular Imaging, Monash University, Clayton, VIC, 3800, Australia.,Department of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Yalelaan 1, 3584CL, Utrecht, The Netherlands. I.vanRhijn@uu.nl.,Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037.,Infection and Immunity Program and Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton, VIC, 3800, Australia. Jamie.rossjohn@monash.edu.,Howard Hughes Medical Institute, Columbia University, New York, NY, USA. bh6@cumc.columbia.edu.,Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany.,Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461; johanna.daily@einstein.yu.edu vern.schramm@einstein.yu.edu.,Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA. sylviegtsodikova@uky.edu.,Scripps Center for HIV/AIDS Vaccine Immunology & Immunogen Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA; Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, CA 92037, USA. Electronic address: jiang@scripps.edu.,Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA. oleg.tsodikov@uky.edu.,Department of Medicine, Columbia University, New York, NY, USA. bh6@cumc.columbia.edu.,Department of Chemistry, University of California, Berkeley, CA, USA. doudna@berkeley.edu.,Department of Early Discovery Biochemistry, Genentech, South San Francisco, CA, USA. hannoush.rami@gene.com.,Department of Integrative Structural and Computational Biology, The Scripps Research Insititute, La Jolla, CA 92037, USA; Scripps Center for HIV/AIDS Vaccine Immunology & Immunogen Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA; The Joint Center for Structural Genomics, The Scripps Research Institute, La Jolla, CA 92037, USA; Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA; International AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA.,Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA, USA.,Department of Mathematics, MIT, Cambridge, MA, USA.,Clayton Foundation Laboratories of Peptide Biology, Salk Institute for Biological Studies, La Jolla, CA, USA.,Zymeworks Inc, 540-1385 West 8th Avenue, Vancouver, BC, V6H 3V9, Canada.,Howard Hughes Medical Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA.,Department of Pharmaceutical Sciences, University of Toronto, Toronto, Ontario, Canada.,Department of Structural Biology, Max Planck Institute of Biophysics, Max-von-Laue-Strasse 3, 60438 Frankfurt am Main, Germany. werner.kuehlbrandt@biophys.mpg.de t.meier@imperial.ac.uk.,Department of Structural Biology, Max Planck Institute of Biophysics, Max-von-Laue-Strasse 3, 60438 Frankfurt am Main, Germany.,State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention, Chinese Center for Disease Control and Prevention; Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Changping District, Beijing 102206, China.,Department of Structural Biology, Genentech, South San Francisco, CA, USA.,Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigori, Ako, Hyogo 678-1297, Japan.,Lee Kong Chian School of Medicine, Nanyang Technological University, EMB 03-07, 59 Nanyang Drive, Singapore 636921, Singapore; NTU Institute of Structural Biology, Nanyang Technological University, EMB 06-01, 59 Nanyang Drive, Singapore 636921, Singapore; School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 636921, Singapore.,Department of Microbiology and Immunology, Albert Einstein College of Medicine, Bronx, NY 10461.,Department of Chemical Engineering and Applied Chemistry, Chungnam National University, Daejeon, 34134, Republic of Korea.,Centre of Advanced Study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India. Electronic address: gunaunom@gmail.com.,State Key Laboratory for Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention, Chinese Center for Disease Control and Prevention; Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Changping District, Beijing 102206, China; Health Science Center, Peking University, Haidian District, Beijing 100191, China; School of Medicine, Nankai University, Nankai District, Tianjin 300071, China. Electronic address: yshao@bjmu.edu.cn.,School of Biological Sciences , University of East Anglia , Norwich Research Park , Norwich NR4 7TJ , U.K.,Department of Chemistry, Vanderbilt University, Nashville, TN 37235.,The Joint Center for Structural Genomics, The Scripps Research Institute, La Jolla, CA 92037, USA.,Centre of Advanced Study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India.,Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA.,Department of Chemistry, University of Duisburg-Essen, Universitätsstrasse 7, 45117, Essen, Germany.,Fachbereich Chemie, Philipps-Universität Marburg, Hans-Meerwein-Strasse 4, 35043, Marburg, Germany.,Department of Urology, Boston Children's Hospital, Department of Microbiology and Immunobiology and Department of Surgery, Harvard Medical School, Boston, MA 02115, USA. min.dong@childrens.harvard.edu.,The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037.,California Institute for Quantitative Biosciences, University of California, Berkeley, CA, USA.,Vollum Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA. gouauxe@ohsu.edu.,Australian Research Council Centre of Excellence in Advanced Molecular Imaging, Monash University, Clayton, VIC, 3800, Australia. Jamie.rossjohn@monash.edu.,Scripps Center for HIV/AIDS Vaccine Immunology & Immunogen Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA; Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, CA 92037, USA; International AIDS Vaccine Initiative Neutralizing Antibody Center and the Collaboration for AIDS Vaccine Discovery, The Scripps Research Institute, La Jolla, CA 92037, USA.,Department of Systems Biology, Columbia University, New York, NY, USA.,Department of Molecular Medicine, Sapienza University of Rome, Viale Regina Elena 324, 00161, Rome, Italy; Gene Expression Laboratory, National Institute for Infectious Diseases "Lazzaro Spallanzani" I.R.C.C.S., Rome, Italy; Pasteur Institute - Cenci Bolognetti Foundation, Sapienza Università di Roma, Viale Regina Elena 324, 00161, Rome, Italy.,Department of Chemistry and Technologies of Drugs, Sapienza University of Rome, P. le A. Moro 5, 00185, Rome, Italy. Electronic address: sergio.valente@uniroma1.it.,Faculty of Chemistry, Philipps-University Marburg, Hans-Meerwein-Straße 4, 35032, Marburg, Germany.,Shubnikov Institute of Crystallography, Federal Scientific Research Centre `Crystallography and Photonics' of Russian Academy of Sciences, Leninsky Prospekt 59, Moscow 119333, Russian Federation.,Zuckerman Mind, Brain and Behavior Institute, Columbia University, New York, NY, USA. bh6@cumc.columbia.edu.,Department of Biochemistry and Biophysics, Stockholm University, S-106 91 Stockholm, Sweden. geoffrey.masuyer@dbb.su.se.,National Institute of Child Health and Human Development, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD, 20892, USA.,Department of Plant and Microbiology, University of California, Berkeley, CA, USA.,Zuckerman Mind, Brain and Behavior Institute, Columbia University, New York, NY, USA.,Institute for Bioscience and Biotechnology Research, University of Maryland, Rockville, MD 20850, USA.,Department of Biophysics, Ruhr University Bochum, 44801 Bochum, Germany.,Institute of Infection and Immunity, School of Medicine, Cardiff University, Heath Park, Cardiff, CF14 4XN, UK. Jamie.rossjohn@monash.edu.,Computer Science and Artificial Intelligence Laboratory, MIT, Cambridge, MA, USA.,Department of Pathology and Laboratory Medicine, University of Kansas School of Medicine, Kansas City, KS, USA.,leadXpro AG, PARK INNOVAARE, 5234, Villigen, Switzerland.,Department of Biosystems and Bioengineering, KRIBB School of Biotechnology, University of Science and Technology, Daejeon, 34113, Republic of Korea.,Maurice Wilkins Centre, The University of Auckland, Auckland, New Zealand p.young@auckland.ac.nz n.moreland@auckland.ac.nz.,Department of Pediatrics, Vanderbilt University Medical Center, Nashville, TN 37232.,Maurice Wilkins Centre, The University of Auckland, Auckland, New Zealand.,Centro Nazionale per il Controllo e la Valutazione dei Farmaci, Istituto Superiore di Sanità, Viale Regina Elena 299, I-00161, Rome, Italy.,Department of Mathematics, University of Leipzig, 04109 Leipzig, Germany.,California Institute for Quantitative Biosciences, University of California, Berkeley, CA, USA. enogales@lbl.gov.,Computational and Systems Biology, MIT, Cambridge, MA, USA.,Institute of Organic Chemistry, Justus-Liebig University, Heinrich-Buff-Ring 17, 35392, Giessen, Germany.,College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan, China.,Department of Experimental Medical Science, Lund University, 221 00 Lund, Sweden.,MRC Laboratory of Molecular Biology, Cambridge, UK. mg@mrc-lmb.cam.ac.uk.,Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy. chiara.gabbiani@unipi.it.,Departments of Nutritional Sciences and Toxicology, University of California, Berkeley, Berkeley, CA, 94720, USA.,Zuckerman Mind, Brain and Behavior Institute, Columbia University, New York, NY, USA. lss8@columbia.edu.,Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA.,Neuprozyme Therapeutics A/S, 2970 Hörsholm, Denmark.,Gladstone Institutes, San Francisco, CA, USA. doudna@berkeley.edu.,Department of Chemistry and Technologies of Drugs, Sapienza University of Rome, P. le A. Moro 5, 00185, Rome, Italy; Center for Life Nano Science@Sapienza, Italian Institute of Technology, Via Regina Elena 291, 00161, Rome, Italy.,Howard Hughes Medical Institute, Columbia University, New York, NY, USA.,Department of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Yalelaan 1, 3584CL, Utrecht, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Botulinum neurotoxin type A
A
445Clostridium botulinum (strain Kyoto / Type A2)Mutation(s): 0 
Gene Names: botA (atx, bna, bonT)
Find proteins for Q45894 (Clostridium botulinum (strain Kyoto / Type A2))
Go to UniProtKB:  Q45894
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Synaptic vesicle glycoprotein 2C
B
117Homo sapiensMutation(s): 0 
Gene Names: SV2C (KIAA1054)
Find proteins for Q496J9 (Homo sapiens)
Go to Gene View: SV2C
Go to UniProtKB:  Q496J9
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.181 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 100.714α = 90.00
b = 122.108β = 90.00
c = 47.657γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
REFMACrefinement
PHASERphasing
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swedish Research CouncilSweden2014-5667
Wenner-Gren FoundationSweden--
Swedish Cancer SocietySweden--
National Institutes of HealthUnited States1R01NS080833

Revision History 

  • Version 1.0: 2018-04-25
    Type: Initial release