1U8F Oxidoreductase date Aug 05, 2004
title Crystal Structure Of Human Placental Glyceraldehyde-3- Phosphate Dehydrogenase At 1.75 Resolution
authors J.L.Jenkins, J.J.Tanner
compound source
Molecule: Glyceraldehyde-3-Phosphate Dehydrogenase, Liver
Chain: O, P, Q, R
Synonym: Gapdh
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Placental
Gene: Gapd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-14b
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.217
length a length b length c angle alpha angle beta angle gamma
84.953 125.651 132.329 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand NAD enzyme Oxidoreductase E.C. BRENDA
Q, O, R, P

Primary referenceHigh-resolution structure of human D-glyceraldehyde-3-phosphate dehydrogenase., Jenkins JL, Tanner JJ, Acta Crystallogr D Biol Crystallogr. 2006 Mar;62(Pt 3):290-301. Epub 2006, Feb 22. PMID:16510976
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (229 Kb) [Save to disk]
  • Biological Unit Coordinates (1u8f.pdb1.gz) 223 Kb
  • LPC: Ligand-Protein Contacts for 1U8F
  • CSU: Contacts of Structural Units for 1U8F
  • Likely Quarternary Molecular Structure file(s) for 1U8F
  • Structure Factors (1229 Kb)
  • Retrieve 1U8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1U8F from S2C, [Save to disk]
  • Re-refined 1u8f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1U8F 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 1U8F
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1U8F, from MSDmotif at EBI
  • Fold representative 1u8f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1u8f] [1u8f_O] [1u8f_Q] [1u8f_R] [1u8f_P]
  • SWISS-PROT database: [P04406]
  • Domain organization of [G3P_HUMAN] by SWISSPFAM
  • Domain found in 1U8F: [Gp_dh_N ] by SMART
  • Other resources with information on 1U8F
  • Community annotation for 1U8F 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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