6MPR | pdb_00006mpr

Crystal structure of a malonate decarboxylase, alpha subunit from Acinetobacter baumannii

• PDB DOI: https://doi.org/10.2210/pdb6MPR/pdb

• Classification: LYASE
• Organism(s): Acinetobacter baumannii ATCC 17978
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-10-08 Released: 2018-10-17 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.197 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.159 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.161 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a malonate decarboxylase, alpha subunit from Acinetobacter baumannii

Edwards, T.E., Mayclin, S.J., Horanyi, P.S., Lorimer, D.D.

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 125.79 kDa 
• Atom Count: 9,831 
• Modeled Residue Count: 1,088 
• Deposited Residue Count: 1,134 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Malonate decarboxylase subunit alpha	A, B	567	Acinetobacter baumannii ATCC 17978	Mutation(s): 0  Gene Names: ABO11849 EC: 4.1.1.89
UniProt
Find proteins for A0A1E3M5S3 (Acinetobacter baumannii) Explore A0A1E3M5S3  Go to UniProtKB:  A0A1E3M5S3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.197 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.159 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.161 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m36mpr

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.37	α = 90
b = 120.32	β = 112.77
c = 75.04	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-10-17 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2018-10-17
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description