3X24 Lyase date Dec 10, 2014
title Crystal Structure Of Nitrile Hydratase Mutant Br56k Complexe Trimethylacetonitrile, Photo-Activated For 120 Min
authors Y.Yamanaka, K.Hashimoto, K.Noguchi, M.Yohda, M.Odaka
compound source
Molecule: Nitrile Hydratase Subunit Alpha
Chain: A
Synonym: Nhase, Nitrilase
Ec: 4.2.1.84
Engineered: Yes
Organism_scientific: Rhodococcus Erythropolis
Organism_taxid: 1833
Gene: Ntha
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nitrile Hydratase Subunit Beta
Chain: B
Synonym: Nhase, Nitrilase
Ec: 4.2.1.84
Engineered: Yes
Mutation: Yes

Organism_scientific: Rhodococcus Erythropolis
Organism_taxid: 1833
Gene: Nthb, Nha2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.138 R_Free 0.163
crystal
cell
length a length b length c angle alpha angle beta angle gamma
113.910 59.913 81.585 90.00 125.05 90.00
method X-Ray Diffractionresolution 1.24 Å
ligand CSD, CSO, FE, MG, TAN enzyme Lyase E.C.4.2.1.84 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceTime-Resolved Crystallography of the Reaction Intermediate of Nitrile Hydratase: Revealing a Role for the Cysteinesulfenic Acid Ligand as a Catalytic Nucleophile., Yamanaka Y, Kato Y, Hashimoto K, Iida K, Nagasawa K, Nakayama H, Dohmae N, Noguchi K, Noguchi T, Yohda M, Odaka M, Angew Chem Int Ed Engl. 2015 Sep 7;54(37):10763-7. doi: 10.1002/anie.201502731. PMID:26333053
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (155 Kb) [Save to disk]
  • Biological Unit Coordinates (3x24.pdb1.gz) 149 Kb
  • LPC: Ligand-Protein Contacts for 3X24
  • CSU: Contacts of Structural Units for 3X24
  • Structure Factors (2293 Kb)
  • Retrieve 3X24 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3X24 from S2C, [Save to disk]
  • Re-refined 3x24 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3X24 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 3X24
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3x24_B] [3x24] [3x24_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3X24
  • Community annotation for 3X24 at PDBWiki (http://pdbwiki.org)

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