2H5L Hydrolase date May 26, 2006
title S-Adenosylhomocysteine Hydrolase Containing Nad And 3-Deaza- Eritadenine
authors T.Yamada, J.Komoto, F.Takusagawa
compound source
Molecule: Adenosylhomocysteinase
Chain: A, B, C, D, E, F, G, H
Synonym: S-Adenosyl-L-Homocysteine Hydrolase, Adohcyase
Ec: 3.3.1.1
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Gene: Ahcy
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.248 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.500 178.600 112.660 90.00 107.90 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand 3DD, NAD enzyme Hydrolase E.C.3.3.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceStructure and function of eritadenine and its 3-deaza analogues: potent inhibitors of S-adenosylhomocysteine hydrolase and hypocholesterolemic agents., Yamada T, Komoto J, Lou K, Ueki A, Hua DH, Sugiyama K, Takata Y, Ogawa H, Takusagawa F, Biochem Pharmacol. 2007 Apr 1;73(7):981-9. Epub 2006 Dec 14. PMID:17214973
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (526 Kb) [Save to disk]
  • Biological Unit Coordinates (2h5l.pdb1.gz) 264 Kb
  • Biological Unit Coordinates (2h5l.pdb2.gz) 263 Kb
  • LPC: Ligand-Protein Contacts for 2H5L
  • CSU: Contacts of Structural Units for 2H5L
  • Likely Quarternary Molecular Structure file(s) for 2H5L
  • Structure Factors (769 Kb)
  • Retrieve 2H5L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H5L from S2C, [Save to disk]
  • Re-refined 2h5l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H5L 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 2H5L
  • 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 2H5L, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h5l_A] [2h5l_H] [2h5l_E] [2h5l_G] [2h5l_C] [2h5l_F] [2h5l_B] [2h5l_D] [2h5l]
  • SWISS-PROT database: [P10760]
  • Domain organization of [SAHH_RAT] by SWISSPFAM
  • Domains found in 2H5L: [AdoHcyase] [AdoHcyase_NAD ] by SMART
  • Other resources with information on 2H5L
  • Community annotation for 2H5L 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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