6B5G Oxidoreductase Oxidoreductase Inhibitor date Sep 29, 2017
title Aldh1a2 Liganded With Nad And (3-Ethoxythiophen-2-Yl){4-[4-N (Pyrrolidin-1-Yl)Phenyl]Piperazin-1-Yl}Methanone (Compound
authors Y.Chen, J.Y.Zhu, E.Schonbrunn
compound source
Molecule: Retinal Dehydrogenase 2
Chain: A, B, C, D
Fragment: Unp Residues 26-518
Synonym: Raldh2, Aldehyde Dehydrogenase Family 1 Member A2, Retinaldehyde-Specific Dehydrogenase Type 2, Raldh(II);
Ec: 1.2.1.36
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Aldh1a2, Raldh2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21star(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.203 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.600 140.520 164.610 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand
enzyme Oxidoreductase E.C.1.2.1.36 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural Basis of ALDH1A2 Inhibition by Irreversible and Reversible Small Molecule Inhibitors., Chen Y, Zhu JY, Hong KH, Mikles DC, Georg GI, Goldstein AS, Amory JK, Schonbrunn E, ACS Chem Biol. 2018 Jan 3. doi: 10.1021/acschembio.7b00685. PMID:29240402
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (332 Kb) [Save to disk]
  • Biological Unit Coordinates (6b5g.pdb1.gz) 324 Kb
  • CSU: Contacts of Structural Units for 6B5G
  • Structure Factors (802 Kb)
  • Retrieve 6B5G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6B5G from S2C, [Save to disk]
  • View 6B5G 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 6B5G
  • 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
  • Fold representative 6b5g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6b5g_A] [6b5g_C] [6b5g_B] [6b5g_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6B5G
  • Community annotation for 6B5G at PDBWiki (http://pdbwiki.org)

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