1KY5	Hydrolase	date	Feb 03, 2002
title	D244e Mutant S-Adenosylhomocysteine Hydrolase Refined With Noncrystallographic Restraints
authors	Y.Takata, F.Takusagawa
compound		source
Molecule: S-Adenosylhomocysteine Hydrolase Chain: A, B, C, D Synonym: Adenosylhomocysteinase, Adohcyase Ec: 3.3.1.1 Engineered: Yes Mutation: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Norway Rat Organism_taxid: 10116 Organ: Liver Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 2	R_factor 0.215 R_Free 0.293
crystal cell	length a length b length c angle alpha angle beta angle gamma 91.000 223.000 91.200 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	ADY, NAI	enzyme	Hydrolase E.C.3.3.1.1 BRENDA
related structures	by homologous chain: 1A7A, 1B3R
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Catalytic mechanism of S-adenosylhomocysteine hydrolase. Site-directed mutagenesis of Asp-130, Lys-185, Asp-189, and Asn-190., Takata Y, Yamada T, Huang Y, Komoto J, Gomi T, Ogawa H, Fujioka M, Takusagawa F, J Biol Chem 2002 Jun 21;277(25):22670-6. Epub 2002 Apr 1. PMID:11927587

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk] Biological Unit Coordinates (1ky5.pdb1.gz) 268 Kb LPC: Ligand-Protein Contacts for 1KY5 CSU: Contacts of Structural Units for 1KY5 Likely Quarternary Molecular Structure file(s) for 1KY5 Retrieve 1KY5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1KY5 from S2C, [Save to disk]

View 1KY5 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 1KY5

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1KY5, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ky5a1, region A:190-352 [Jmol] [rasmolscript] [script source]     - Domain d1ky5a2, region A:2-189,A:353-431 [Jmol] [rasmolscript] [script source]     - Domain d1ky5b2, region B:1002-1189,B:1353-1431 [Jmol] [rasmolscript] [script source]     - Domain d1ky5b1, region B:1190-1352 [Jmol] [rasmolscript] [script source]     - Domain d1ky5c2, region C:2002-2189,C:2353-2431 [Jmol] [rasmolscript] [script source]     - Domain d1ky5c1, region C:2190-2352 [Jmol] [rasmolscript] [script source]     - Domain d1ky5d2, region D:3002-3189,D:3353-3431 [Jmol] [rasmolscript] [script source]     - Domain d1ky5d1, region D:3190-3352 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ky5_D] [1ky5_A] [1ky5_B] [1ky5_C] [1ky5] SWISS-PROT database: [P10760] Domain organization of [SAHH_RAT] by SWISSPFAM Domains found in 1KY5: [AdoHcyase] [AdoHcyase_NAD ] by SMART

Other resources with information on 1KY5

Community annotation for 1KY5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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