6GYI | pdb_00006gyi

Azurin fom Pseudomonas aeruginosa treated with hydrosulfide

• PDB DOI: https://doi.org/10.2210/pdb6GYI/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Pseudomonas aeruginosa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-06-29 Released: 2019-01-30 
• Deposition Author(s): Palm, G.J., Kohlhause, D.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.243 (Depositor), 0.249 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.198 (DCC) 
• R-Value Observed: 
  0.193 (Depositor) 

Starting Model: experimental

Literature

Azurin and HS-: towards implementation of a sensor for HS-detection.

Strianese, M., Palm, G.J., Kohlhause, D., Ndamba, L.A., Tabares, L.C., Pellecchia , C.

(2019) Eur J Inorg Chem 

• DOI: https://doi.org/10.1002/ejic.201801399

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 56.26 kDa 
• Atom Count: 4,331 
• Modeled Residue Count: 509 
• Deposited Residue Count: 512 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Azurin	A, B, C, D	128	Pseudomonas aeruginosa	Mutation(s): 0  Gene Names: azu, PA4922
UniProt
Find proteins for P00282 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore P00282  Go to UniProtKB:  P00282

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CU (Subject of Investigation/LOI)	E [auth A], G [auth B], I [auth C], K [auth D]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
CA	F [auth A], H [auth B], J [auth C], L [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.243 (Depositor), 0.249 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.198 (DCC) 
• R-Value Observed: 0.193 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.736	α = 90
b = 59.781	β = 90.38
c = 79.727	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-01-30 
Deposition Author(s): Palm, G.J., Kohlhause, D.

Revision History  

• Version 1.0: 2019-01-30
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary