1T90 | pdb_00001t90

Crystal structure of methylmalonate semialdehyde dehydrogenase from Bacillus subtilis

• PDB DOI: https://doi.org/10.2210/pdb1T90/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-05-14 Released: 2006-01-03 
• Deposition Author(s): Dubourg, H., Didierjean, C., Stines-Chaumeil, C., Talfournier, F., Branlant, G., Aubry, A., Corbier, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.250 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.211 (Depositor), 0.211 (DCC) 
• R-Value Observed: 
  0.213 (Depositor) 

Literature

Crystal structure analysis of Methylmalonate-Semialdehyde Dehydrogenase from Bacillus subtilis.

Dubourg, H., Didierjean, C., Stines-Chaumeil, C., Talfournier, F., Branlant, G., Aubry, A., Corbier, C.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 216.17 kDa 
• Atom Count: 16,006 
• Modeled Residue Count: 1,936 
• Deposited Residue Count: 1,944 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable methylmalonate-semialdehyde dehydrogenase	A, B, C, D	486	Bacillus subtilis	Mutation(s): 0  Gene Names: MMSA, IOLA, E83A, BSU39760 EC: 1.2.1.27
UniProt
Find proteins for P42412 (Bacillus subtilis (strain 168)) Explore P42412  Go to UniProtKB:  P42412

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	E [auth A], F [auth B], G [auth C], H [auth D]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.250 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.211 (Depositor), 0.211 (DCC) 
• R-Value Observed: 0.213 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 195.2	α = 90
b = 192.5	β = 90
c = 83.5	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
XDS	data reduction
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-01-03 
Deposition Author(s): Dubourg, H., Didierjean, C., Stines-Chaumeil, C., Talfournier, F., Branlant, G., Aubry, A., Corbier, C.

Revision History  

• Version 1.0: 2006-01-03
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations