1S7C Structural Genomics, Oxidoreductase date Jan 29, 2004
title Crystal Structure Of Mes Buffer Bound Form Of Glyceraldehyde Phosphate Dehydrogenase From Escherichia Coli
authors D.H.Shin, J.Thor, H.Yokota, R.Kim, S.H.Kim, Berkeley Structural G Center (Bsgc)
compound source
Molecule: Glyceraldehyde 3-Phosphate Dehydrogenase A
Chain: A
Synonym: Gapdh-A
Ec: 1.2.1.12
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Gapa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 41 2 2
R_factor 0.200 R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.511 121.511 156.939 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.04 Å
ligand MES, SO4 enzyme Oxidoreductase E.C.1.2.1.12 BRENDA
related structures by homologous chain: 1DC6, 1GAE
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (1s7c.pdb1.gz) 206 Kb
  • LPC: Ligand-Protein Contacts for 1S7C
  • CSU: Contacts of Structural Units for 1S7C
  • Likely Quarternary Molecular Structure file(s) for 1S7C
  • Structure Factors (478 Kb)
  • Retrieve 1S7C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1S7C from S2C, [Save to disk]
  • Re-refined 1s7c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1S7C 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 1S7C
  • 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 1S7C, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1s7ca2, region A:149-312 [Jmol] [rasmolscript] [script source]
        - Domain d1s7ca1, region A:2-148,A:313-331 [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: [1s7c_A] [1s7c]
  • SWISS-PROT database: [P0A9B2]
  • Domain organization of [G3P1_ECOLI] by SWISSPFAM
  • Domain found in 1S7C: [Gp_dh_N ] by SMART
    • Other resources with information on 1S7C
  • Community annotation for 1S7C 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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