6D0G

1.78 Angstrom Resolution Crystal Structure of Quercetin 2,3-dioxygenase from Acinetobacter baumannii

• PDB DOI: https://doi.org/10.2210/pdb6D0G/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Acinetobacter baumannii
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-04-10 Released: 2018-04-25 
• Deposition Author(s): Minasov, G., Shuvalova, L., Brunzelle, J.S., Dubrovska, I., Kiryukhina, O., Endres, M., Anderson, W.F., Satchell, K.J.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.210 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 

Literature

1.78 Angstrom Resolution Crystal Structure of Quercetin 2,3-dioxygenase from Acinetobacter baumannii.

Minasov, G., Shuvalova, L., Brunzelle, J.S., Dubrovska, I., Kiryukhina, O., Endres, M., Anderson, W.F., Satchell, K.J.F., Joachimiak, A.

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: 36.37 kDa 
• Atom Count: 2,689 
• Modelled Residue Count: 299 
• Deposited Residue Count: 318 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pirin family protein	A	318	Acinetobacter baumannii	Mutation(s): 0  Gene Names:  yhhW_2, yhhW_1, A388_00159, A7A65_05705, A7M90_08420, A7N09_08935, AZE33_00735, B4R90_09220, B9X91_00175, BGC29_04645, CAS83_08120, CBE85_14535, CEJ63_12860, CHQ89_16690, CPI82_15400, CV954_18565, LV38_01393 EC: 1.13.11.24
UniProt
Find proteins for V5VHS3 (Acinetobacter baumannii) Explore V5VHS3  Go to UniProtKB:  V5VHS3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BR	C [auth A], D [auth A]	BROMIDE ION Br CPELXLSAUQHCOX-UHFFFAOYSA-M
MN	B [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.210 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 
• Space Group: C 2 2 2₁
• Diffraction Data: https://doi.org/10.18430/m36d0g

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.883	α = 90
b = 73.616	β = 90
c = 202.741	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-04-25 
Deposition Author(s): Minasov, G., Shuvalova, L., Brunzelle, J.S., Dubrovska, I., Kiryukhina, O., Endres, M., Anderson, W.F., Satchell, K.J.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2018-04-25
  Type: Initial release
  
• Version 1.1: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary