3R97 | pdb_00003r97

Crystal structure of malonyl-CoA:acyl carrier protein transacylase (FabD), Xoo0880, from Xanthomonas oryzae pv. oryzae KACC10331

• PDB DOI: https://doi.org/10.2210/pdb3R97/pdb
• Entry: 3R97 supersedes: 3EEN

• Classification: TRANSFERASE
• Organism(s): Xanthomonas oryzae pv. oryzae KACC 10331
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-03-25 Released: 2011-04-13 
• Deposition Author(s): Natarajan, S., Jung, J.W., Kang, L.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.225 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.168 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.171 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of malonyl-CoA:acyl carrier protein transacylase (FabD), Xoo0880, from Xanthomonas oryzae pv. oryzae KACC10331

Natarajan, S., Jung, J.W., Kang, L.W.

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)

Macromolecule Content 

• Total Structure Weight: 32.85 kDa 
• Atom Count: 2,465 
• Modeled Residue Count: 314 
• Deposited Residue Count: 314 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Malonyl CoA-ACP transacylase	A	314	Xanthomonas oryzae pv. oryzae KACC 10331	Mutation(s): 0  Gene Names: fabD, XOO0880 EC: 2.3.1.39
UniProt
Find proteins for Q5H4I7 (Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85)) Explore Q5H4I7  Go to UniProtKB:  Q5H4I7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NHE	B [auth A]	2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID C8 H17 N O3 S MKWKNSIESPFAQN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.225 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.168 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.171 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.425	α = 90
b = 74.587	β = 90
c = 98.523	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-13 
Deposition Author(s): Natarajan, S., Jung, J.W., Kang, L.W.
• This entry supersedes: 3EEN

Revision History  

• Version 1.0: 2011-04-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description