Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 65849.41 
• Atom Count: 4513 
• Residue Count: 574 
• Unique protein chains: 1

1FEH

FE-ONLY HYDROGENASE FROM CLOSTRIDIUM PASTEURIANUM

• DOI: 10.2210/pdb1FEH/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Clostridium pasteurianum


• Deposited: 1998-10-28 Released: 1999-01-13 
• Deposition Author(s): Peters, J.W., Lanzilotta, W.N., Lemon, B.J., Seefeldt, L.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.235 
• R-Value Work: 0.180 

Literature

X-ray crystal structure of the Fe-only hydrogenase (CpI) from Clostridium pasteurianum to 1.8 angstrom resolution.

Peters, J.W., Lanzilotta, W.N., Lemon, B.J., Seefeldt, L.C.

(1998) Science 282: 1853-1858

• PubMed: 9836629 


• PubMed Abstract: 
  

A three-dimensional structure for the monomeric iron-containing hydrogenase (CpI) from Clostridium pasteurianum was determined to 1.8 angstrom resolution by x-ray crystallography using multiwavelength anomalous dispersion (MAD) phasing. CpI, an enzyme that catalyzes the two-electron reduction of two protons to yield dihydrogen, was found to contain 20 gram atoms of iron per mole of protein, arranged into five distinct [Fe-S] clusters. The probable active-site cluster, previously termed the H-cluster, was found to be an unexpected arrangement of six iron atoms existing as a [4Fe-4S] cubane subcluster covalently bridged by a cysteinate thiol to a [2Fe] subcluster. The iron atoms of the [2Fe] subcluster both exist with an octahedral coordination geometry and are bridged to each other by three non-protein atoms, assigned as two sulfide atoms and one carbonyl or cyanide molecule. This structure provides insights into the mechanism of biological hydrogen activation and has broader implications for [Fe-S] cluster structure and function in biological systems.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, Utah State University, Logan, UT 84322, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PROTEIN (PERIPLASMIC HYDROGENASE 1)	A	574	Clostridium pasteurianum	Mutation(s): 0  EC: 1.12.7.2
Find proteins for P29166 (Clostridium pasteurianum) Go to UniProtKB:  P29166

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SF4	A	IRON/SULFUR CLUSTER Fe4 S4 LJBDFODJNLIPKO-VKOJMFJBAC
HC1	A	2 IRON/2 SULFUR/5 CARBONYL/2 WATER INORGANIC CLUSTER C5 H8 Fe2 O7 S2 DXKOXSKJHMBSFW-WPRITKAGAV
FES	A	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.235 
• R-Value Work: 0.180 
• Space Group: P 4₂ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 111.600	α = 90.00
b = 111.600	β = 90.00
c = 103.800	γ = 90.00

Software Package:

Software Name	Purpose
SOLVE	phasing
X-PLOR	refinement
MADSYS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-10-28 
• Released Date: 1999-01-13 
• Deposition Author(s): Peters, J.W., Lanzilotta, W.N., Lemon, B.J., Seefeldt, L.C.

Revision History 

• Version 1.0: 1999-01-13
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance