1VPE CRYSTALLOGRAPHIC ANALYSIS OF PHOSPHOGLYCERATE KINASE FROM THE HYPERTHERMOPHILIC BACTERIUM THERMOTOGA MARITIMA date
authors Auerbach, G., Huber, R., Graettinger, M., Zaiss, K., Schurig, H., Jaenicke, R., Jacob, U.
compound source
symmetry
R_factor
R_Free 0.2880000
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand 3PG, ANP, MG enzyme
note 1VPE (Molecule of the Month:pdb50)
related structures by homologous chain: 1G5R, 1G5T
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceClosed structure of phosphoglycerate kinase from Thermotoga maritima reveals the catalytic mechanism and determinants of thermal stability., Auerbach G, Huber R, Grattinger M, Zaiss K, Schurig H, Jaenicke R, Jacob U, Structure 1997 Nov 15;5(11):1475-83. PMID:9384563
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (1vpe.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 1VPE
  • CSU: Contacts of Structural Units for 1VPE
  • Likely Quarternary Molecular Structure file(s) for 1VPE
  • Retrieve 1VPE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VPE from S2C, [Save to disk]
  • View 1VPE 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 1VPE
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1VPE, from MSDmotif at EBI
  • Genome occurence of 1VPE's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vpe__, region [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: [1vpe] [1vpe_A]
  • SWISS-PROT database: [P36204]
  • Domain organization of [PGKT_THEMA] by SWISSPFAM
  • Other resources with information on 1VPE
  • Community annotation for 1VPE 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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