2MRM

Solution structure of the rhodanese domain of YgaP from E. coli


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Fast conformational exchange between the sulfur-free and persulfide-bound rhodanese domain of E. coli YgaP

Wang, W.Zhou, P.He, Y.Yu, L.Xiong, Y.Tian, C.Wu, F.

(2014) Biochem Biophys Res Commun 452: 817-821

  • DOI: https://doi.org/10.1016/j.bbrc.2014.09.002
  • Primary Citation of Related Structures:  
    2MRM

  • PubMed Abstract: 

    Rhodanese domains are abundant structural modules that catalyze the transfer of a sulfur atom from thiolsulfates to cyanide via formation of a covalent persulfide intermediate that is bound to an essential conserved cysteine residue. In this study, the three-dimensional structure of the rhodanese domain of YgaP from Escherichia coli was determined using solution NMR. A typical rhodanese domain fold was observed, as expected from the high homology with the catalytic domain of other sulfur transferases. The initial sulfur-transfer step and formation of the rhodanese persulfide intermediate were monitored by addition of sodium thiosulfate using two-dimensional (1)H-(15)N correlation spectroscopy. Discrete sharp signals were observed upon substrate addition, indicting fast exchange between sulfur-free and persulfide-intermediate forms. Residues exhibiting pronounced chemical shift changes were mapped to the structure, and included both substrate binding and surrounding residues.


  • Organizational Affiliation

    High Magnetic Field Laboratory, Chinese Academy of Sciences, Hefei, Anhui 230031, PR China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Membrane protein114Escherichia coliMutation(s): 0 
Gene Names: BU34_15760CF57_07085CF61_07785
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-10-08
    Type: Initial release