1GCP Signaling Protein date Aug 08, 2000
title Crystal Structure Of Vav Sh3 Domain
authors M.Nishida, K.Nagata, Y.Hachimori, K.Ogura, F.Inagaki
compound source
Molecule: Vav Proto-Oncogene
Chain: A, B, C, D
Fragment: N-Terminal Domain
Engineered: Yes
 Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Cell_line: Hematopoietic Cells
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a(+)
symmetry Space Group: P 1 21 1
R_factor 0.193 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
32.205 101.115 39.707 90.00 91.34 90.00
method X-Ray Diffractionresolution 2.10 Å
related structures by homologous chain: 1GCQ, 1K1Z
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceNovel recognition mode between Vav and Grb2 SH3 domains., Nishida M, Nagata K, Hachimori Y, Horiuchi M, Ogura K, Mandiyan V, Schlessinger J, Inagaki F, EMBO J 2001 Jun 15;20(12):2995-3007. PMID:11406576
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (1gcp.pdb1.gz) 12 Kb
  • Biological Unit Coordinates (1gcp.pdb2.gz) 12 Kb
  • Biological Unit Coordinates (1gcp.pdb3.gz) 12 Kb
  • Biological Unit Coordinates (1gcp.pdb4.gz) 13 Kb
  • CSU: Contacts of Structural Units for 1GCP
  • Likely Quarternary Molecular Structure file(s) for 1GCP
  • Structure Factors (115 Kb)
  • Retrieve 1GCP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GCP from S2C, [Save to disk]
  • Re-refined 1gcp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1GCP 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 1GCP
  • 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 1GCP, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gcpa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1gcpb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1gcpc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1gcpd_, region D [Jmol] [rasmolscript] [script source]
  • 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: [1gcp_B] [1gcp] [1gcp_C] [1gcp_D] [1gcp_A]
  • SWISS-PROT database: [P27870]
  • Domain organization of [VAV_MOUSE] by SWISSPFAM
  • Domain found in 1GCP: [SH3 ] by SMART
    • Other resources with information on 1GCP
  • Community annotation for 1GCP 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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