1W88	Oxidoreductase	date	Sep 16, 2004
title	The Crystal Structure Of Pyruvate Dehydrogenase E1(D180n,E18 To The Peripheral Subunit Binding Domain Of E2
authors	R.A.W.Frank, J.V.Pratap, X.Y.Pei, R.N.Perham, B.F.Luisi
compound		source
Molecule: Pyruvate Dehydrogenase E1 Component, Alpha Subuni Chain: A, C, E, G Ec: 1.2.4.1 Engineered: Yes Mutation: Yes		Organism_scientific: Geobacillus Stearothermophilus Organism_taxid: 1422 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Pyruvate Dehydrogenase E1 Component, Beta Subunit Chain: B, D, F, H Ec: 1.2.4.1 Engineered: Yes		Organism_scientific: Geobacillus Stearothermophilus Organism_taxid: 1422 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Dihydrolipoyllysine-Residue Acetyltransferase Com Pyruvate; Chain: I, J Fragment: Peripheral Subunit Binding Domain (Psbd), Residue Synonym: E2, Dihydrolipoamide Acetyltransferase Component O Dehydrogenase Complex; Ec: 2.3.1.12 Engineered: Yes		Organism_scientific: Geobacillus Stearothermophilus Organism_taxid: 1422 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.199 R_Free 0.262
crystal cell	length a length b length c angle alpha angle beta angle gamma 92.180 133.690 245.610 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	MG, TDP, TPP	enzyme	Oxidoreductase E.C.1.2.4.1 BRENDA
related structures	by homologous chain: 1EBD, 1W85
Gene Ontology	Chain Function Process Component A, E, C, G F, B, H, D J, I
Primary reference	A molecular switch and proton wire synchronize the active sites in thiamine enzymes., Frank RA, Titman CM, Pratap JV, Luisi BF, Perham RN, Science. 2004 Oct 29;306(5697):872-6. PMID:15514159

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (441 Kb) [Save to disk] Biological Unit Coordinates (1w88.pdb1.gz) 223 Kb Biological Unit Coordinates (1w88.pdb2.gz) 215 Kb LPC: Ligand-Protein Contacts for 1W88 CSU: Contacts of Structural Units for 1W88 Likely Quarternary Molecular Structure file(s) for 1W88 Structure Factors (1367 Kb) Retrieve 1W88 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1W88 from S2C, [Save to disk] Re-refined 1w88 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1W88 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 1W88

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 3D motif for 1W88, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1w88a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1w88b1, region B:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w88b2, region B:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w88c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1w88d1, region D:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w88d2, region D:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w88e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1w88f1, region F:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w88f2, region F:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w88g_, region G [Jmol] [rasmolscript] [script source]     - Domain d1w88h1, region H:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w88h2, region H:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w88i_, region I [Jmol] [rasmolscript] [script source]     - Domain d1w88j_, region J [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1w88] [1w88_C] [1w88_J] [1w88_I] [1w88_G] [1w88_D] [1w88_E] [1w88_H] [1w88_A] [1w88_B] [1w88_F] SWISS-PROT database: [P11961] [P21873] [P21874] Domain organization of [ODP2_BACST] [ODPA_BACST] [ODPB_BACST] by SWISSPFAM Domain found in 1W88: [Transket_pyr ] by SMART

Other resources with information on 1W88

Community annotation for 1W88 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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