2PDA	Oxidoreductase	date	Nov 10, 1998
title	Crystal Structure Of The Complex Between Pyruvate-Ferredoxin Oxidoreductase From Desulfovibrio Africanus And Pyruvate.
authors	E.Chabriere, M.H.Charon
compound		source
Molecule: Protein (Pyruvate-Ferredoxin Oxidoreductase) Chain: A, B Ec: 1.2.7.1 Other_details: Complexed With Ironsulfur Cluster, Thiamin Diphosphate, Pyruvic Acid		Organism_scientific: Desulfovibrio Africanus Organism_taxid: 873 Strain: Ncib 8401 Cellular_location: Cytoplasm
symmetry	Space Group: P 21 21 21	R_factor 0.234 R_Free 0.297
crystal cell	length a length b length c angle alpha angle beta angle gamma 86.000 146.300 211.900 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	CA, MG, PYR, SF4, TPP	enzyme	Oxidoreductase E.C.1.2.7.1 BRENDA
related structures	by homologous chain: 1B0P
Gene Ontology	Chain Function Process Component A, B pyruvate synthase activity
Primary reference	Crystal structures of the key anaerobic enzyme pyruvate:ferredoxin oxidoreductase, free and in complex with pyruvate., Chabriere E, Charon MH, Volbeda A, Pieulle L, Hatchikian EC, Fontecilla-Camps JC, Nat Struct Biol 1999 Feb;6(2):182-90. PMID:10048931

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (383 Kb) [Save to disk] Biological Unit Coordinates (2pda.pdb1.gz) 375 Kb LPC: Ligand-Protein Contacts for 2PDA CSU: Contacts of Structural Units for 2PDA Likely Quarternary Molecular Structure file(s) for 2PDA Retrieve 2PDA in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2PDA from S2C, [Save to disk]

View 2PDA 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 2PDA

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 2PDA, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2pdaa1, region A:2-258 [Jmol] [rasmolscript] [script source]     - Domain d2pdaa3, region A:259-415 [Jmol] [rasmolscript] [script source]     - Domain d2pdaa4, region A:416-668 [Jmol] [rasmolscript] [script source]     - Domain d2pdaa5, region A:669-785 [Jmol] [rasmolscript] [script source]     - Domain d2pdaa2, region A:786-1232 [Jmol] [rasmolscript] [script source]     - Domain d2pdab1, region B:2-258 [Jmol] [rasmolscript] [script source]     - Domain d2pdab3, region B:259-415 [Jmol] [rasmolscript] [script source]     - Domain d2pdab4, region B:416-668 [Jmol] [rasmolscript] [script source]     - Domain d2pdab5, region B:669-785 [Jmol] [rasmolscript] [script source]     - Domain d2pdab2, region B:786-1232 [Jmol] [rasmolscript] [script source] Fold representative 2pda from FSSP and Dali (Families of Structurally Similar Proteins) 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: [2pda] [2pda_A] [2pda_B] SWISS-PROT database: [P94692] Domain organization of [P94692_DESAF] by SWISSPFAM Domain found in 2PDA: [EKR ] by SMART

Other resources with information on 2PDA

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

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