3RPD

The structure of a B12-independent methionine synthase from Shewanella sp. W3-18-1 in complex with Selenomethionine.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.189
  • R-Value Work: 0.164

Literature

Macromolecules
Sequence Display for 3RPD

Classification: TRANSFERASE

Total Structure Weight: 81949.07

Macromolecule Entities
Molecule Chains Length Organism Details
Methionine synthase (B12-independent) A, B 357 Shewanella sp. w3-18-1 EC#: 2.1.1.14 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MSE
Query on MSE

A, B SELENOMETHIONINE
C5 H11 N O2 Se
RJFAYQIBOAGBLC-BYPYZUCNSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.189
  • R-Value Work: 0.164
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 46.10 α = 90.00
b = 89.37 β = 92.45
c = 86.53 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-04-26
  • Released Date: 2011-08-31
  • Deposition author(s): Cuff, M.E., Li, H., Hatzos-Skintges, C., Tesar, C., Bearden, J., Clancy, A., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

No revisions since initial release