5XMO | pdb_00005xmo

X-ray crystal structure of Pseudoazurin Met16Phe/Thr36Lys variant

• PDB DOI: https://doi.org/10.2210/pdb5XMO/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Achromobacter cycloclastes
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2017-05-16 Released: 2018-05-16 
• Deposition Author(s): Yamaguchi, T., Kohzuma, T.
• Funding Organization(s): Japan Society for the Promotion of Science

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 
  0.161 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.128 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.130 (Depositor) 

Starting Model: experimental

Literature

X-ray Crystallographic Analysis of M16F/T36K Double Mutant of Pseudoazurin

Yamaguchi, T., Takebayashi, N., Akao, K., Sakai, C., Kohzuma, T.

(2017) Photon Factory Activity Report 34

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 13.14 kDa 
• Atom Count: 1,238 
• Modeled Residue Count: 124 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pseudoazurin	A	124	Achromobacter cycloclastes	Mutation(s): 2  Gene Names: bcp
UniProt
Find proteins for P19567 (Achromobacter cycloclastes) Explore P19567  Go to UniProtKB:  P19567

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CU	B [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free:  0.161 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.128 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.130 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.17	α = 90
b = 41.16	β = 98.71
c = 34.83	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
iMOSFLM	data processing
PDB_EXTRACT	data extraction
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-05-16 
Deposition Author(s): Yamaguchi, T., Kohzuma, T.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science	Japan	22550145

Revision History  

• Version 1.0: 2018-05-16
  Type: Initial release
  
• Version 1.1: 2018-11-21
  Changes: Data collection, Database references
• Version 1.2: 2023-11-22
  Changes: Data collection, Database references, Refinement description