3EQ6 Ligase date Sep 30, 2008
title Crystal Structure Of Human Acyl-Coa Synthetase Medium-Chain Member 2a (L64p Mutation) In A Ternary Complex With Product
authors E.S.Pilka, G.Kochan, W.W.Yue, C.Bhatia, F.Von Delft, C.H.Arrowsmi A.M.Edwards, J.Weigelt, C.Bountra, U.Oppermann, Structural Geno Consortium (Sgc)
compound source
Molecule: Acyl-Coenzyme A Synthetase Acsm2a
Chain: A, B
Fragment: Unp Residues 32-577
Synonym: Acyl-Coa Synthetase Medium-Chain Family Member 2a, Chain Acyl-Coa Synthetase 2a, Butyryl Coenzyme A Synthetase Butyrate-Coa Ligase 2a;
Ec: 6.2.1.2
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Acsm2a
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
Expression_system_strain: High Five
Expression_system_vector_type: Baculovirus
symmetry Space Group: P 1 21 1
R_factor 0.187 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.028 98.041 116.660 90.00 94.12 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand AMP, BCO enzyme Ligase E.C.6.2.1.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural snapshots for the conformation-dependent catalysis by human medium-chain acyl-coenzyme A synthetase ACSM2A., Kochan G, Pilka ES, von Delft F, Oppermann U, Yue WW, J Mol Biol. 2009 May 22;388(5):997-1008. Epub 2009 Apr 1. PMID:19345228
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (187 Kb) [Save to disk]
  • Biological Unit Coordinates (3eq6.pdb1.gz) 94 Kb
  • Biological Unit Coordinates (3eq6.pdb2.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 3EQ6
  • CSU: Contacts of Structural Units for 3EQ6
  • Likely Quarternary Molecular Structure file(s) for 3EQ6
  • Structure Factors (687 Kb)
  • Retrieve 3EQ6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EQ6 from S2C, [Save to disk]
  • Re-refined 3eq6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EQ6 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 3EQ6
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3EQ6, from MSDmotif at EBI
  • Fold representative 3eq6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3eq6_A] [3eq6] [3eq6_B]
  • SWISS-PROT database: [Q08AH3]
  • Domain organization of [ACS2A_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 3EQ6 with the sequences similar proteins can be viewed for 3EQ6's classification [ACS2A_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [ACS2A_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3EQ6
  • Community annotation for 3EQ6 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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