2YYY	Oxidoreductase	date	May 02, 2007
title	Crystal Structure Of Glyceraldehyde-3-Phosphate Dehydrogenase
authors	A.D.Malay, Y.Bessho, B.Padmanabhan, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Glyceraldehyde-3-Phosphate Dehydrogenase Chain: A, B Synonym: Gapdh, Nad(P)-Dependent Glyceraldehyde-3- Phosphate Dehydrogenase; Ec: 1.2.1.59 Engineered: Yes		Organism_scientific: Methanocaldococcus Jannaschii Organism_taxid: 243232 Strain: Dsm2661 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21-Codonplus(De3)-Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-21a
symmetry	Space Group: C 2 2 21	R_factor 0.169 R_Free 0.198
crystal cell	length a length b length c angle alpha angle beta angle gamma 83.398 152.040 118.552 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.85 Å
ligand	NAP	enzyme	Oxidoreductase E.C.1.2.1.59 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structure of glyceraldehyde-3-phosphate dehydrogenase from the archaeal hyperthermophile Methanocaldococcus jannaschii., Malay AD, Bessho Y, Ellis MJ, Antonyuk SV, Strange RW, Hasnain SS, Shinkai A, Padmanabhan B, Yokoyama S, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Dec 1;65(Pt, 12):1227-33. Epub 2009 Nov 27. PMID:20054117

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk] Biological Unit Coordinates (2yyy.pdb1.gz) 116 Kb LPC: Ligand-Protein Contacts for 2YYY CSU: Contacts of Structural Units for 2YYY Likely Quarternary Molecular Structure file(s) for 2YYY Retrieve 2YYY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YYY from S2C, [Save to disk]

View 2YYY 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 2YYY

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2YYY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yyy_B] [2yyy_A] [2yyy] SWISS-PROT database: [Q58546] Domain organization of [G3P_METJA] by SWISSPFAM Domain found in 2YYY: [Gp_dh_N ] by SMART

Other resources with information on 2YYY

Community annotation for 2YYY at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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