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 Diffraction	resolution	2.40 Å
ligand	AMP, BCO	enzyme	Ligase E.C.6.2.1.2 BRENDA
Gene Ontology	Chain Function Process Component A, B nucleotide binding ATP binding ligase activity metal ion binding butyrate-CoA ligase activity... lipid metabolic process fatty acid metabolic process... medium-chain fatty-acyl-CoA ... glucose homeostasis triglyceride homeostasis mitochondrion mitochondrial matrix
Primary reference	Structural 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 (686 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_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)

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