9BJW

Crystal structure of RidA family protein PA5083 from Pseudomonas aeruginosa

• PDB DOI: https://doi.org/10.2210/pdb9BJW/pdb

• Classification: HYDROLASE
• Organism(s): Pseudomonas aeruginosa
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2024-04-25 Released: 2024-09-04 
• Deposition Author(s): Zhou, D., Chen, L., Rose, J.P., Wang, B.C.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 0.213 
• R-Value Work: 0.198 
• R-Value Observed: 0.200 

Starting Model: in silico

Literature

Structure of the Rid protein PA5083 from Pseudomonas aeruginosa (Apo form)

Zhou, D., Chen, L., Rose, J.P., Wang, B.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 12.57 kDa 
• Atom Count: 995 
• Modelled Residue Count: 116 
• Deposited Residue Count: 116 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RidA family protein PA5083	A	116	Pseudomonas aeruginosa	Mutation(s): 0  Gene Names: yabJ_3, CAZ10_01035, GNQ48_03865, GUL26_07970, IPC1295_08400, IPC737_05390, NCTC13621_05579, PA52Ts2_0667 EC: 3.5.4
UniProt
Find proteins for A0A069Q0R8 (Pseudomonas aeruginosa) Explore A0A069Q0R8  Go to UniProtKB:  A0A069Q0R8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 0.213 
• R-Value Work: 0.198 
• R-Value Observed: 0.200 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.48	α = 90
b = 75.48	β = 90
c = 140.04	γ = 120

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-04 
Deposition Author(s): Zhou, D., Chen, L., Rose, J.P., Wang, B.C.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-09-04
  Type: Initial release