1V1R Oxidoreductase date Apr 22, 2004
title Crosstalk Between Cofactor Binding And The Phosphorylation L Conformation In The Bckd Machine
authors J.Li, R.M.Wynn, M.Machius, J.L.Chuang, S.Karthikeyan, D.R.Tomchic D.T.Chuang
compound source
Molecule: 2-Oxoisovalerate Dehydrogenase Alpha Subunit
Chain: A
Synonym: Mitochondrial Precursor, Branched-Chain Alpha-Keto Dehydrogenase E1, Component Alpha Chain, Bckdh E1-Alpha, Bc
Ec: 1.2.4.4
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl-21 Cells With Overexpressing G Groes;
Expression_system_vector_type: Plasmid
Expression_system_vector: Ptrchisb (Invitrogen)
Expression_system_plasmid: Ptrc-Alpha-Betahis

Molecule: 2-Oxoisovalerate Dehydrogenase Beta Subunit
Chain: B
Synonym: Mitochondrial Precursor, Branched-Chain Alpha-Keto Dehydrogenase E1, Component Beta Chain, Bckdh E1-Beta;
Ec: 1.2.4.4
Engineered: Yes
Other_details: Apo-Form

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl-21 Cells With Overexpressing G Groes;
Expression_system_vector_type: Plasmid
Expression_system_vector: Ptrchisb (Invitrogen)
Expression_system_plasmid: Ptrc-Alpha-Betahis
Other_details: Expression System Used Bl-21 Cells With Overexpressing Groel And Groes
symmetry Space Group: P 31 2 1
R_factor 0.157 R_Free 0.183
crystal
cell
length a length b length c angle alpha angle beta angle gamma
145.135 145.135 69.226 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand CL, GOL, K, NA, SO4 enzyme Oxidoreductase E.C.1.2.4.4 BRENDA
related structures by homologous chain: 1U5B, 1X7W
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceCross-talk between thiamin diphosphate binding and phosphorylation loop conformation in human branched-chain alpha-keto acid decarboxylase/dehydrogenase., Li J, Wynn RM, Machius M, Chuang JL, Karthikeyan S, Tomchick DR, Chuang DT, J Biol Chem. 2004 Jul 30;279(31):32968-78. Epub 2004 May 27. PMID:15166214
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk]
  • Biological Unit Coordinates (1v1r.pdb1.gz) 243 Kb
  • LPC: Ligand-Protein Contacts for 1V1R
  • CSU: Contacts of Structural Units for 1V1R
  • Likely Quarternary Molecular Structure file(s) for 1V1R
  • Structure Factors (1105 Kb)
  • Retrieve 1V1R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V1R from S2C, [Save to disk]
  • Re-refined 1v1r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1V1R 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 1V1R
  • 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 1V1R, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v1ra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1v1rb1, region B:2-204 [Jmol] [rasmolscript] [script source]
        - Domain d1v1rb2, region B:205-342 [Jmol] [rasmolscript] [script source]
  • 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: [1v1r_B] [1v1r_A] [1v1r]
  • SWISS-PROT database: [P12694] [P21953]
  • Domain organization of [ODBA_HUMAN] [ODBB_HUMAN] by SWISSPFAM
  • Domain found in 1V1R: [Transket_pyr ] by SMART
  • Other resources with information on 1V1R
  • Community annotation for 1V1R at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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