2VLE	Oxidoreductase	date	Jan 13, 2008
title	The Structure Of Daidzin, A Naturally Occurring Anti Alcohol-Addiction Agent, In Complex With Human Mitochondrial Aldehyde Dehydrogenase
authors	E.D.Lowe, G.Y.Gao, L.N.Johnson, W.M.Keung
compound		source
Molecule: Aldehyde Dehydrogenase, Mitochondrial Chain: A, B, C, D, E, F, G, H Fragment: Residues 24-517 Synonym: Aldh Class 2, Aldhi, Aldh-E2 Ec: 1.2.1.3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Liver Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pt7-7
symmetry	Space Group: P 21 21 21	R_factor 0.1962 R_Free 0.2495
crystal cell	length a length b length c angle alpha angle beta angle gamma 142.770 150.990 176.990 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.4 Å
ligand	DZN	enzyme	Oxidoreductase E.C.1.2.1.3 BRENDA
note	2VLE supersedes 1OF7
Gene Ontology	Chain Function Process Component F, A, E, B, H, C, D, G aldehyde dehydrogenase (NAD)... aldehyde dehydrogenase [NAD(... electron carrier activity oxidoreductase activity carbohydrate metabolic proce... alcohol metabolic process ethanol catabolic process ethanol oxidation xenobiotic metabolic process... synaptic transmission neurotransmitter biosyntheti... small molecule metabolic pro... oxidation-reduction process mitochondrion mitochondrial matrix
Primary reference	Structure of daidzin, a naturally occurring anti-alcohol-addiction agent, in complex with human mitochondrial aldehyde dehydrogenase., Lowe ED, Gao GY, Johnson LN, Keung WM, J Med Chem. 2008 Aug 14;51(15):4482-7. Epub 2008 Jul 10. PMID:18613661

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1276 Kb) [Save to disk] Biological Unit Coordinates (2vle.pdb1.gz) 640 Kb Biological Unit Coordinates (2vle.pdb2.gz) 635 Kb LPC: Ligand-Protein Contacts for 2VLE CSU: Contacts of Structural Units for 2VLE Likely Quarternary Molecular Structure file(s) for 2VLE Structure Factors (1188 Kb) Retrieve 2VLE in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VLE from S2C, [Save to disk] Re-refined 2vle structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VLE 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 2VLE

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 2VLE, from MSDmotif at EBI Fold representative 2vle from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vle_A] [2vle_B] [2vle_C] [2vle_D] [2vle_E] [2vle_F] [2vle_G] [2vle_H] SWISS-PROT database: [P05091] Domain organization of [ALDH2_HUMAN] by SWISSPFAM Alignments of the sequence of 2VLE with the sequences similar proteins can be viewed for 2VLE's classification [ALDH2_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 [ALDH2_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2VLE

Community annotation for 2VLE at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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