5HH9

Structure of PvdN from Pseudomonas aeruginosa

• PDB DOI: https://doi.org/10.2210/pdb5HH9/pdb

• Classification: TRANSFERASE
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-01-10 Released: 2017-01-18 
• Deposition Author(s): Xia, H., Bai, G., Liu, S., Li, N., Xu, S., Chen, K., Yao, Q., Gu, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.165 
• R-Value Work: 0.134 
• R-Value Observed: 0.135 

Literature

Structural and Biochemical Characterization of a Novel L-Cystine Desulfurase involved in the biosynthesis of the major siderophore pyoverdine in Pseudomonas aeruginosa

Xia, H., Bai, G., Liu, S., Li, N., Xu, S., Chen, K., Yao, Q., Gu, L.

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: 89.03 kDa 
• Atom Count: 6,795 
• Modelled Residue Count: 780 
• Deposited Residue Count: 780 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PvdN	A, B	390	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: pvdN
UniProt
Find proteins for G3XCY5 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore G3XCY5  Go to UniProtKB:  G3XCY5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLP	C [auth A], D [auth B]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.165 
• R-Value Work: 0.134 
• R-Value Observed: 0.135 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.654	α = 90
b = 91.297	β = 101.19
c = 61.664	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-01-18 
Deposition Author(s): Xia, H., Bai, G., Liu, S., Li, N., Xu, S., Chen, K., Yao, Q., Gu, L.

Revision History  

• Version 1.0: 2017-01-18
  Type: Initial release
  
• Version 1.1: 2017-01-25
  Changes: Structure summary
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references