1PFU

METHIONYL-TRNA SYNTHETASE FROM ESCHERICHIA COLI COMPLEXED WITH METHIONINE PHOSPHINATE

Structural Biology Knowledgebase: 1PFU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 1PFU

Classification: LIGASE

Total Structure Weight: 63193.31

Macromolecule Entities
Molecule Chains Length Organism Details
Methionyl-tRNA synthetase A 551 Escherichia coli EC#: 6.1.1.10 IUBMB
Fragment: RESIDUES 1-551
Gene Name(s): metG b2114 JW2101
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A (1-AMINO-3-METHYLSULFANYL-PROPYL)-PHOSPHINIC ACID
METHIONINE PHOSPHINATE (Synonym)
C4 H12 N O2 P S
CZRBNMUARBZMHQ-SCSAIBSYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MPJ N/A in BindingDB
Kd: 1900000 nM  BindingMOAD
Kd: 1900000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.195
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 79.01 α = 90.00
b = 45.50 β = 107.34
c = 86.32 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-05-27
  • Released Date: 2004-02-17
  • Deposition author(s): Crepin, T., Schmitt, E., Mechulam, Y., Sampson, P.B., Vaughan, M.D., Honek, J.F., Blanquet, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4