2RE2 | pdb_00002re2

CRYSTAL STRUCTURE OF A PUTATIVE IRON-MOLYBDENUM COFACTOR (FEMO-CO) DINITROGENASE (TA1041M) FROM THERMOPLASMA ACIDOPHILUM DSM 1728 AT 1.30 A RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb2RE2/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Thermoplasma acidophilum DSM 1728
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-09-25 Released: 2007-10-09 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.179 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Literature

Crystal structure of protein of unknown function (NP_394501.1) from Thermoplasma acidophilum at 1.30 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration, light scattering

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration, light scattering

Macromolecule Content 

• Total Structure Weight: 30.11 kDa 
• Atom Count: 2,234 
• Modeled Residue Count: 238 
• Deposited Residue Count: 272 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein Ta1041	A, B	136	Thermoplasma acidophilum DSM 1728	Mutation(s): 0  Gene Names: NP_394501.1, Ta1041
UniProt
Find proteins for Q9HJC9 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore Q9HJC9  Go to UniProtKB:  Q9HJC9

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.179 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M32RE2

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.381	α = 72.03
b = 36.555	β = 71.81
c = 51.641	γ = 87.25

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
SOLVE	phasing
MolProbity	model building
SCALA	data scaling
PDB_EXTRACT	data extraction
MAR345	data collection
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-10-09 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2007-10-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Author supporting evidence, Refinement description
• Version 1.3: 2019-07-24
  Changes: Data collection, Derived calculations, Refinement description
• Version 1.4: 2023-01-25
  Changes: Database references
• Version 1.5: 2024-10-30
  Changes: Data collection, Structure summary