3T7V

Crystal structure of methylornithine synthase (PylB)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.129 
  • R-Value Observed: 0.130 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Crystal structure of methylornithine synthase (PylB): insights into the pyrrolysine biosynthesis.

Quitterer, F.List, A.Eisenreich, W.Bacher, A.Groll, M.

(2012) Angew Chem Int Ed Engl 51: 1339-1342


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
methylornithine synthase PylBA350Methanosarcina barkeri str. FusaroMutation(s): 0 
Gene Names: Mbar_A0838pylB
EC: 2.8.1.6 (PDB Primary Data), 5.4.99.58 (UniProt)
UniProt
Find proteins for Q46E78 (Methanosarcina barkeri (strain Fusaro / DSM 804))
Explore Q46E78 
Go to UniProtKB:  Q46E78
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SAM (Subject of Investigation/LOI)
Query on SAM

Download Ideal Coordinates CCD File 
C [auth A]S-ADENOSYLMETHIONINE
C15 H22 N6 O5 S
MEFKEPWMEQBLKI-FCKMPRQPSA-N
 Ligand Interaction
SF4
Query on SF4

Download Ideal Coordinates CCD File 
B [auth A]IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
 Ligand Interaction
MD0
Query on MD0

Download Ideal Coordinates CCD File 
D [auth A]5-amino-D-isoleucine
C6 H14 N2 O2
HYUPFEBCCJWDJX-RFZPGFLSSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.129 
  • R-Value Observed: 0.130 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.02α = 90
b = 77.02β = 90
c = 104.95γ = 120
Software Package:
Software NamePurpose
XDSdata scaling
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-11-30
    Type: Initial release
  • Version 1.1: 2012-04-18
    Changes: Database references