3GPD Oxidoreductase (Nad(A)-Aldehyde(D)) date Jun 20, 1983
title Twinning In Crystals Of Human Skeletal Muscle D-Glyceraldehy Phosphate Dehydrogenase
authors H.C.Watson, J.C.Campbell
compound source
Molecule: D-Glyceraldehyde-3-Phosphate Dehydrogenase
Chain: R, G
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.330 R_Free NULL
length a length b length c angle alpha angle beta angle gamma
132.400 97.900 81.600 90.00 114.30 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand NAD, SO4 enzyme Oxidoreductase E.C. BRENDA
note 3GPD (Molecule of the Month:pdb50)
R, G

Primary referenceTwinning in crystals of human skeletal muscle D-glyceraldehyde-3-phosphate dehydrogenase., Mercer WD, Winn SI, Watson HC, J Mol Biol 1976 Jun 14;104(1):277-83. PMID:957435
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (3gpd.pdb1.gz) 175 Kb
  • LPC: Ligand-Protein Contacts for 3GPD
  • CSU: Contacts of Structural Units for 3GPD
  • Likely Quarternary Molecular Structure file(s) for 3GPD
  • Retrieve 3GPD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GPD from S2C, [Save to disk]
  • View 3GPD 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 3GPD
  • 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 3GPD, from MSDmotif at EBI
  • Genome occurence of 3GPD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d3gpdg1, region G:1-150,G:315-334 [Jmol] [rasmolscript] [script source]
        - Domain d3gpdg2, region G:151-314 [Jmol] [rasmolscript] [script source]
        - Domain d3gpdr1, region R:1-150,R:315-334 [Jmol] [rasmolscript] [script source]
        - Domain d3gpdr2, region R:151-314 [Jmol] [rasmolscript] [script source]
  • Fold representative 3gpd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gpd_G] [3gpd] [3gpd_R]
  • SWISS-PROT database: [P04406]
  • Domain organization of [G3P_HUMAN] by SWISSPFAM
  • Domain found in 3GPD: [Gp_dh_N ] by SMART
  • Other resources with information on 3GPD
  • Community annotation for 3GPD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 3GPD from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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