1ORB

ACTIVE SITE STRUCTURAL FEATURES FOR CHEMICALLY MODIFIED FORMS OF RHODANESE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Active site structural features for chemically modified forms of rhodanese.

Gliubich, F.Gazerro, M.Zanotti, G.Delbono, S.Bombieri, G.Berni, R.

(1996) J.Biol.Chem. 271: 21054-21061

  • Primary Citation of Related Structures:  2ORA

  • PubMed Abstract: 
  • In the course of the reaction catalyzed by rhodanese, the enzyme cycles between two catalytic intermediates, the sulfur-free and the sulfur-substituted (persulfide-containing) forms. The crystal structure of sulfur-free rhodanese, which was prepared ...

    In the course of the reaction catalyzed by rhodanese, the enzyme cycles between two catalytic intermediates, the sulfur-free and the sulfur-substituted (persulfide-containing) forms. The crystal structure of sulfur-free rhodanese, which was prepared in solution and then crystallized, is highly similar to that of sulfur-substituted enzyme. The inactivation of sulfur-free rhodanese with a small molar excess of hydrogen peroxide relies essentially on a modification limited to the active site, consisting of the oxidation of the essential sulfhydryl to sulfenyl group (-S-OH). Upon reaction of the sulfur-free enzyme with monoiodoacetate in the crystal, the Cys-247 side chain with the bound carboxymethyl group is forced into a conformation that allows favorable interactions of the carboxylate with the four peptide NH groups that participate in hydrogen bonding interactions with the transferable sulfur atom of the persulfide group in the sulfur-substituted rhodanese. It is concluded that active site-specific chemical modifications of sulfur-free rhodanese do not lead to significant changes of the protein structure, consistent with a high degree of similarity of the structures of the sulfur-free and sulfur-substituted forms of the enzyme both in solution and in the crystal.


    Related Citations: 
    • The Covalent and Tertiary Structure of Bovine Liver Rhodanese
      Ploegman, J.H.,Drent, G.,Kalk, K.H.,Hol, W.G.J.,Heinrikson, W.G.J.,Keim, R.L.,Weng, P.S.,Russel, J.
      (1978) Nature 273: 124
    • The Structure of Bovine Liver Rhodanese: The Active Site in the Sulfur-Substituted and the Sulfur-Free Enzyme
      Ploegman, J.H.,Drent, G.,Kalk, K.H.,Hol, W.G.J.
      (1979) J.Mol.Biol. 127: 149
    • The High Resolution Three-Dimensional Structure of Bovine Liver Rhodanese
      Hol, W.G.J.,Lijk, L.J.,Kalk, K.H.
      (1983) Fundam.Appl.Toxicol. 3: 370


    Organizational Affiliation

    Department of Organic Chemistry, University of Padova and Biopolymer Research Center, Consiglio Nazionale delle Ricerche, 35131 Padova, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CARBOXYMETHYLATED RHODANESE
A
296Bos taurusGene Names: TST
EC: 2.8.1.1
Find proteins for P00586 (Bos taurus)
Go to Gene View: TST
Go to UniProtKB:  P00586
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 156.230α = 90.00
b = 49.040β = 98.60
c = 42.250γ = 90.00
Software Package:
Software NamePurpose
SAINTdata reduction
TNTrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1995-10-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance