2NU7

C123aS Mutant of E. coli Succinyl-CoA Synthetase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.201 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Participation of Cys 123alpha of Escherichia coli Succinyl-CoA Synthetase in Catalysis

Hidber, E.Brownie, E.R.Hayakawa, K.Fraser, M.E.

(2007) ACTA CRYSTALLOGR.,SECT.D 63: 876-884

  • DOI: 10.1107/S0907444907029319
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Succinyl-CoA synthetase has a highly conserved cysteine residue, Cys123alpha in the Escherichia coli enzyme, that is located near the CoA-binding site and the active-site histidine residue. To test whether the succinyl moiety of succinyl-CoA is trans ...

    Succinyl-CoA synthetase has a highly conserved cysteine residue, Cys123alpha in the Escherichia coli enzyme, that is located near the CoA-binding site and the active-site histidine residue. To test whether the succinyl moiety of succinyl-CoA is transferred to the thiol of Cys123alpha as part of the catalytic mechanism, this residue was mutated to alanine, serine, threonine and valine. Each mutant protein was catalytically active, although less active than the wild type. This proved that the specific formation of a thioester bond with Cys123alpha is not part of the catalytic mechanism. To understand why the mutations affected catalysis, the crystal structures of the four mutant proteins were determined. The alanine mutant showed no structural changes yet had reduced activity, suggesting that the size of the cysteine is important for optimal activity. These results explain why this cysteine residue is conserved in the sequences of succinyl-CoA synthetases from different sources.


    Organizational Affiliation

    Department of Biochemistry, University of Western Ontario, London, Ontario, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Succinyl-CoA ligase [ADP-forming] subunit alpha
A, D
288Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: sucD
EC: 6.2.1.5
Find proteins for P0AGE9 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AGE9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Succinyl-CoA synthetase beta chain
B, E
388Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: sucC
EC: 6.2.1.5
Find proteins for P0A836 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A836
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, D
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
B, E
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
COA
Query on COA

Download SDF File 
Download CCD File 
A, B, D, E
COENZYME A
C21 H36 N7 O16 P3 S
RGJOEKWQDUBAIZ-IBOSZNHHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.201 
  • Space Group: P 43 2 2
Unit Cell:
Length (Å)Angle (°)
a = 96.630α = 90.00
b = 96.630β = 90.00
c = 386.800γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
SCALEPACKdata scaling
ADSCdata collection
d*TREKdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2006-11-08 
  • Released Date: 2007-07-24 
  • Deposition Author(s): Fraser, M.E.

Revision History 

  • Version 1.0: 2007-07-24
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance