4JJG

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 

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Ligand Structure Quality Assessment 


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:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
5,10-methenyltetrahydromethanopterin hydrogenaseA, B344Methanothermobacter marburgensis str. MarburgMutation(s): 0 
Gene Names: hmdmthMTBMA_c15260
EC: 1.12.98.2
UniProt
Find proteins for P32440 (Methanothermobacter marburgensis (strain ATCC BAA-927 / DSM 2133 / JCM 14651 / NBRC 100331 / OCM 82 / Marburg))
Explore P32440 
Go to UniProtKB:  P32440
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP32440
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FE9
Query on FE9

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B]
iron-guanylyl pyridinol cofactor
C21 H23 Fe N6 O13 P S
AEHOAZNVUAGELD-VPXBKTNXSA-K
 Ligand Interaction
IC9
Query on IC9

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
N-methyl-1-[(4-methylbenzyl)sulfonyl]methanamine
C10 H15 N O2 S
XASGHCUSPMUTIK-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
IC9 Binding MOAD:  4JJG Ki: 2 (nM) from 1 assay(s)
PDBBind:  4JJG Ki: 2 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 141.88α = 90
b = 141.88β = 90
c = 95.48γ = 120
Software Package:
Software NamePurpose
XDSdata scaling
PHASERphasing
REFMACrefinement
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

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