3RH9 | pdb_00003rh9

The crystal structure of oxidoreductase from Marinobacter aquaeolei

• PDB DOI: https://doi.org/10.2210/pdb3RH9/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Marinobacter nauticus VT8
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-04-11 Released: 2011-05-04 
• Deposition Author(s): Zhang, Z., Almo, S.C., Swaminathan, S., New York Structural Genomics Research Consortium (NYSGRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.63 Å
• R-Value Free: 
  0.252 (Depositor), 0.191 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Literature

The crystal structure of oxidoreductase from Marinobacter aquaeolei

Zhang, Z., Almo, S.C., Swaminathan, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 111.59 kDa 
• Atom Count: 7,507 
• Modeled Residue Count: 957 
• Deposited Residue Count: 1,012 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Succinate-semialdehyde dehydrogenase (NAD(P)(+))	A, B	506	Marinobacter nauticus VT8	Mutation(s): 0  Gene Names: Maqu_3647 EC: 1.2.1.16
UniProt
Find proteins for A1U6U7 (Marinobacter nauticus (strain ATCC 700491 / DSM 11845 / VT8)) Explore A1U6U7  Go to UniProtKB:  A1U6U7

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: 2.63 Å
• R-Value Free:  0.252 (Depositor), 0.191 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.483	α = 90
b = 102.477	β = 90
c = 144.498	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SOLVE	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-05-04 
Deposition Author(s): Zhang, Z., Almo, S.C., Swaminathan, S., New York Structural Genomics Research Consortium (NYSGRC)

Revision History  

• Version 1.0: 2011-05-04
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary