3D2R	Transferase	date	May 08, 2008
title	Crystal Structure Of Pyruvate Dehydrogenase Kinase Isoform 4 Complex With Adp
authors	M.Kato, R.M.Wynn, L.C.Chuang, S.C.Tso, J.Li, D.T.Chuang
compound		source
Molecule: [Pyruvate Dehydrogenase [Lipoamide]] Kinase Isozy Chain: A, B Synonym: Pyruvate Dehydrogenase Kinase Isoform 4 Ec: 2.7.11.2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_taxid: 9606 Gene: Pdk4 Expression_system: Escherichia Coli Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid
symmetry	Space Group: P 1 21 1	R_factor 0.183 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.595 69.374 82.328 90.00 99.26 90.00
method	X-Ray Diffraction	resolution	2.03 Å
ligand	ADP, GOL, MG	enzyme	Transferase E.C.2.7.11.2 BRENDA
Gene Ontology	Chain Function Process Component A, B protein kinase activity protein serine/threonine kin... pyruvate dehydrogenase (acet...
Primary reference	Pyruvate dehydrogenase kinase-4 structures reveal a metastable open conformation fostering robust core-free basal activity., Wynn RM, Kato M, Chuang JL, Tso SC, Li J, Chuang DT, J Biol Chem. 2008 Sep 12;283(37):25305-15. Epub 2008 Jul 24. PMID:18658136

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (126 Kb) [Save to disk] Biological Unit Coordinates (3d2r.pdb1.gz) 120 Kb LPC: Ligand-Protein Contacts for 3D2R CSU: Contacts of Structural Units for 3D2R Likely Quarternary Molecular Structure file(s) for 3D2R Structure Factors (365 Kb) Retrieve 3D2R in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D2R from S2C, [Save to disk] Re-refined 3d2r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D2R 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 3D2R

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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 3D2R, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d2r_A] [3d2r_B] [3d2r] SWISS-PROT database: [Q16654] Domain organization of [PDK4_HUMAN] by SWISSPFAM Domain found in 3D2R: [HATPase_c ] by SMART

Other resources with information on 3D2R

Community annotation for 3D2R at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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