3DSL Hydrolase date Jul 13, 2008
title The Three-Dimensional Structure Of Bothropasin, The Main Hem Factor From Bothrops Jararaca Venom.
authors J.R.C.Muniz, A.Ambrosio, H.S.Selistre-De-Araujo, G.Oliva, R.C.Ga D.H.F.Souza
compound source
Molecule: Zinc Metalloproteinase-Disintegrin Bothropasin
Chain: A, B
Synonym: Disintegrin Bothropasin
Ec: 3.4.24.49
Organism_scientific: Bothrops Jararaca
Organism_common: Jararaca
Organism_taxid: 8724
symmetry Space Group: P 21 21 21
R_factor 0.210 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.757 100.271 133.237 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand CA, FLE, NAG, TRP, ZN enzyme Hydrolase E.C.3.4.24.49 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe three-dimensional structure of bothropasin, the main hemorrhagic factor from Bothrops jararaca venom: Insights for a new classification of snake venom metalloprotease subgroups., Muniz JR, Ambrosio AL, Selistre-de-Araujo HS, Cominetti MR, Moura-da-Silva AM, Oliva G, Garratt RC, Souza DH, Toxicon. 2008 Sep 27. PMID:18831982
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (275 Kb) [Save to disk]
  • Biological Unit Coordinates (3dsl.pdb1.gz) 269 Kb
  • LPC: Ligand-Protein Contacts for 3DSL
  • CSU: Contacts of Structural Units for 3DSL
  • Likely Quarternary Molecular Structure file(s) for 3DSL
  • Structure Factors (1186 Kb)
  • Retrieve 3DSL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DSL from S2C, [Save to disk]
  • Re-refined 3dsl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DSL in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3DSL
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3DSL, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dsl] [3dsl_B] [3dsl_A]
  • SWISS-PROT database: [P30431]
  • Domain organization of [VMJAR_BOTJA] by SWISSPFAM
  • Domains found in 3DSL: [ACR] [DISIN ] by SMART
  • Other resources with information on 3DSL
  • Community annotation for 3DSL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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