1Y8P	Transferase	date	Dec 13, 2004
title	Crystal Structure Of The Pdk3-L2 Complex
authors	M.Kato, J.L.Chuang, R.M.Wynn, D.T.Chuang
compound		source
Molecule: [Pyruvate Dehydrogenase [Lipoamide]] Kinase Isozy Chain: A Synonym: Pyruvate Dehydrogenase Kinase Isoform 3 Ec: 2.7.1.99 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pdk3 Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Ptrchisb
Molecule: Dihydrolipoyllysine-Residue Acetyltransferase Com Pyruvate Dehydrogenase Complex; Chain: B Synonym: E2, Dihydrolipoamide Acetyltransferase Component O Dehydrogenase Complex, Pdc-E2, 70 Kda Mitochondrial Autoant Primary Biliary Cirrhosis, Pbc, M2 Antigen Complex 70 Kda S Ec: 2.3.1.12 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Dlat, Dlta Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Ptrchisb
symmetry	Space Group: P 65 2 2	R_factor 0.204 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 120.904 120.904 240.085 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.63 Å
ligand	ATP, K, MG, RED	enzyme	Transferase E.C.2.7.1.99 BRENDA
related structures	by homologous chain: 1FYC, 1Y8N
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of pyruvate dehydrogenase kinase 3 bound to lipoyl domain 2 of human pyruvate dehydrogenase complex., Kato M, Chuang JL, Tso SC, Wynn RM, Chuang DT, EMBO J 2005 May 18;24(10):1763-74. Epub 2005 Apr 28. PMID:15861126

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk] Biological Unit Coordinates (1y8p.pdb1.gz) 156 Kb LPC: Ligand-Protein Contacts for 1Y8P CSU: Contacts of Structural Units for 1Y8P Likely Quarternary Molecular Structure file(s) for 1Y8P Structure Factors (421 Kb) Retrieve 1Y8P in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Y8P from S2C, [Save to disk] Re-refined 1y8p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Y8P 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 1Y8P

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1Y8P, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1y8p_A] [1y8p_B] [1y8p] SWISS-PROT database: [P10515] [Q15120] Domain organization of [ODP2_HUMAN] [PDK3_HUMAN] by SWISSPFAM Domain found in 1Y8P: [HATPase_c ] by SMART

Other resources with information on 1Y8P

Community annotation for 1Y8P at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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