1V2J Hydrolase date Oct 17, 2003
title Benzamidine In Complex With Bovine Trypsin Variant X(Ssri) Bt.C1
authors D.Rauh, G.Klebe, M.T.Stubbs
compound source
Molecule: Trypsin
Chain: T
Synonym: Beta-Trypsin
Ec: 3.4.21.4
Engineered: Yes
Mutation: Yes
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Tissue: Pancreas
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a
symmetry Space Group: P 21 21 21
R_factor 0.216 R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.100 70.340 64.150 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand BEN, CA, SO4 BindingDB enzyme Hydrolase E.C.3.4.21.4 BRENDA
related structures by homologous chain: 1AVX, 1V2T
Gene
Ontology
ChainFunctionProcessComponent
T


Primary referenceUnderstanding protein-ligand interactions: the price of protein flexibility., Rauh D, Klebe G, Stubbs MT, J Mol Biol 2004 Jan 30;335(5):1325-41. PMID:14729347
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (1v2j.pdb1.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 1V2J
  • CSU: Contacts of Structural Units for 1V2J
  • Likely Quarternary Molecular Structure file(s) for 1V2J
  • Structure Factors (605 Kb)
  • Retrieve 1V2J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V2J from S2C, [Save to disk]
  • Re-refined 1v2j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1V2J 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 1V2J
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1V2J, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v2jt_, region T [Jmol] [rasmolscript] [script source]
  • Fold representative 1v2j from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v2j] [1v2j_T]
  • SWISS-PROT database: [P00760]
  • Domain organization of [TRY1_BOVIN] by SWISSPFAM
  • Domain found in 1V2J: [Tryp_SPc ] by SMART
  • Other resources with information on 1V2J
  • Community annotation for 1V2J 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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