1W85	Oxidoreductase	date	Sep 16, 2004
title	The Crystal Structure Of Pyruvate Dehydrogenase E1 Bound To 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		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 1 21 1	R_factor 0.176 R_Free 0.215
crystal cell	length a length b length c angle alpha angle beta angle gamma 68.270 232.330 91.924 90.00 90.81 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	K, MG, PEG, TDP, TPP	enzyme	Oxidoreductase E.C.1.2.4.1 BRENDA
note	1W85 (Molecule of the Month:pdb153)
related structures	by homologous chain: 1W88
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] (465 Kb) [Save to disk] Biological Unit Coordinates (1w85.pdb1.gz) 234 Kb Biological Unit Coordinates (1w85.pdb2.gz) 229 Kb LPC: Ligand-Protein Contacts for 1W85 CSU: Contacts of Structural Units for 1W85 Likely Quarternary Molecular Structure file(s) for 1W85 Structure Factors (1489 Kb) Retrieve 1W85 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1W85 from S2C, [Save to disk] Re-refined 1w85 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1W85 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 1W85

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 1W85, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1w85a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1w85b1, region B:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w85b2, region B:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w85c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1w85d1, region D:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w85d2, region D:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w85e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1w85f1, region F:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w85f2, region F:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w85g_, region G [Jmol] [rasmolscript] [script source]     - Domain d1w85h1, region H:1-192 [Jmol] [rasmolscript] [script source]     - Domain d1w85h2, region H:193-324 [Jmol] [rasmolscript] [script source]     - Domain d1w85i_, region I [Jmol] [rasmolscript] [script source]     - Domain d1w85j_, region J [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1w85_F] [1w85_G] [1w85_B] [1w85_I] [1w85_E] [1w85] [1w85_D] [1w85_A] [1w85_J] [1w85_C] [1w85_H] SWISS-PROT database: [P11961] [P21873] [P21874] Domain organization of [ODP2_BACST] [ODPA_BACST] [ODPB_BACST] by SWISSPFAM Domain found in 1W85: [Transket_pyr ] by SMART

Other resources with information on 1W85

Community annotation for 1W85 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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