7QOM

A mutant of the nitrile hydratase from Geobacillus pallidus having enhanced thermostability

• PDB DOI: https://doi.org/10.2210/pdb7QOM/pdb

• Classification: LYASE
• Organism(s): Aeribacillus pallidus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2022-03-17 Released: 2023-03-29 
• Deposition Author(s): Van Wyk, J.C., Cowan, D.A., Danson, M.J., Tsekoa, T.L., Sayed, M.F., Sewell, B.T.
• Funding Organization(s): National Research Foundation in South Africa, Royal Society

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.184 
• R-Value Work: 0.142 
• R-Value Observed: 0.144 

Literature

A mutant of the nitrile hydratase from Geobacillus pallidus having enhanced thermostability

Van Wyk, J.C., Cowan, D.A., Danson, M.J., Tsekoa, T.L., Sayed, M.F., Sewell, B.T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 50.38 kDa 
• Atom Count: 3,998 
• Modelled Residue Count: 429 
• Deposited Residue Count: 436 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitrile hydratase	A	207	Aeribacillus pallidus	Mutation(s): 1  EC: 4.2.1.84
UniProt
Find proteins for Q84FS5 (Bacillus sp. RAPc8) Explore Q84FS5  Go to UniProtKB:  Q84FS5

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitrile hydratase subunit beta	B	229	Aeribacillus pallidus	Mutation(s): 2  EC: 4.2.1.84
UniProt
Find proteins for Q84FS6 (Bacillus sp. RAPc8) Explore Q84FS6  Go to UniProtKB:  Q84FS6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CO (Subject of Investigation/LOI)	C [auth A]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N
CL (Subject of Investigation/LOI)	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSD	A	L-PEPTIDE LINKING	C3 H7 N O4 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.184 
• R-Value Work: 0.142 
• R-Value Observed: 0.144 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.18	α = 90
b = 106.18	β = 90
c = 82.88	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
d*TREK	data scaling
PDB_EXTRACT	data extraction
d*TREK	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-29 
Deposition Author(s): Van Wyk, J.C., Cowan, D.A., Danson, M.J., Tsekoa, T.L., Sayed, M.F., Sewell, B.T.

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Funding Organization	Location	Grant Number
National Research Foundation in South Africa	United Kingdom	--
Royal Society	United Kingdom	--

Revision History  

• Version 1.0: 2023-03-29
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description