4JJG

Crystal structure of FE-hydrogenase from methanothermobacter marburgensis in complex with toluenesulfonylmethylisocyanide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structures of [fe]-hydrogenase in complex with inhibitory isocyanides: implications for the h2 -activation site.

Tamura, H.Salomone-Stagni, M.Fujishiro, T.Warkentin, E.Meyer-Klaucke, W.Ermler, U.Shima, S.

(2013) Angew.Chem.Int.Ed.Engl. 52: 9656-9659


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
5,10-methenyltetrahydromethanopterin hydrogenase
A, B
344Methanothermobacter marburgensis (strain ATCC BAA-927 / DSM 2133 / JCM 14651 / NBRC 100331 / OCM 82 / Marburg)Mutation(s): 0 
Gene Names: hmd (mth)
EC: 1.12.98.2
Find proteins for P32440 (Methanothermobacter marburgensis (strain ATCC BAA-927 / DSM 2133 / JCM 14651 / NBRC 100331 / OCM 82 / Marburg))
Go to UniProtKB:  P32440
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IC9
Query on IC9

Download SDF File 
Download CCD File 
A, B
N-methyl-1-[(4-methylbenzyl)sulfonyl]methanamine
C10 H15 N O2 S
XASGHCUSPMUTIK-UHFFFAOYSA-N
 Ligand Interaction
FE9
Query on FE9

Download SDF File 
Download CCD File 
A, B
iron-guanylyl pyridinol cofactor
C21 H23 Fe N6 O13 P S
AEHOAZNVUAGELD-VPXBKTNXSA-K
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
IC9Ki: 2 nM BINDINGMOAD
IC9Ki: 2 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 141.880α = 90.00
b = 141.880β = 90.00
c = 95.480γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-08-07
    Type: Initial release
  • Version 1.1: 2013-09-18
    Type: Database references