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 Ec: 1.2.1.12 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
crystal cell	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 Diffraction	resolution	1.75 Å
ligand	NAD	enzyme	Oxidoreductase E.C.1.2.1.12 BRENDA
Gene Ontology	Chain Function Process Component Q, O, R, P glyceraldehyde-3-phosphate d... protein binding microtubule binding oxidoreductase activity oxidoreductase activity, act... transferase activity peptidyl-cysteine S-nitrosyl... NADP binding NAD binding microtubule cytoskeleton org... carbohydrate metabolic proce... glucose metabolic process gluconeogenesis glycolysis regulation of translation apoptotic process negative regulation of trans... peptidyl-cysteine S-trans-ni... small molecule metabolic pro... protein stabilization neuron apoptotic process oxidation-reduction process cellular response to interfe... nucleus cytoplasm lipid particle cytosol cytoskeleton plasma membrane microtubule cytoskeleton membrane ribonucleoprotein complex perinuclear region of cytopl... extracellular vesicular exos...
Primary reference	High-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 (1165 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_O] [1u8f_P] [1u8f_Q] [1u8f_R] SWISS-PROT database: [P04406] Domain organization of [G3P_HUMAN] by SWISSPFAM Domain found in 1U8F: [Gp_dh_N ] by SMART Alignments of the sequence of 1U8F with the sequences similar proteins can be viewed for 1U8F's classification [G3P_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [G3P_HUMAN] at ProtoMap. Click on the Cluster number.

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.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2010 Bioinformatics Unit Weizmann Institute of Science

---