3OW5 | pdb_00003ow5

Crystal structure of the Y200A mutant of gamma carbonic anhydrase from Methanosarcina thermophila

• PDB DOI: https://doi.org/10.2210/pdb3OW5/pdb

• Classification: LYASE
• Organism(s): Methanosarcina thermophila
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-09-17 Released: 2011-10-26 
• Deposition Author(s): Domsic, J.F., Robbins, A.H., McKenna, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.152 (Depositor), 0.150 (DCC) 
• R-Value Work: 
  0.129 (Depositor), 0.130 (DCC) 
• R-Value Observed: 
  0.130 (Depositor) 

Literature

Crystal structure of the Y200A mutant of Methanosarcina thermophila

Domsic, J.F., Robbins, A.H., McKenna, R.

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: 23.07 kDa 
• Atom Count: 1,640 
• Modeled Residue Count: 205 
• Deposited Residue Count: 213 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase	A	213	Methanosarcina thermophila	Mutation(s): 1  EC: 4.2.1.1
UniProt
Find proteins for P40881 (Methanosarcina thermophila (strain ATCC 43570 / DSM 1825 / OCM 12 / VKM B-1830 / TM-1)) Explore P40881  Go to UniProtKB:  P40881

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
BCT	E [auth A]	BICARBONATE ION C H O3 BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE	C [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
SO4	BindingDB:  3OW5	Ki: min: 1.17e+7, max: 2.00e+8 (nM) from 2 assay(s)
BCT	BindingDB:  3OW5	Ki: 4.20e+7 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.152 (Depositor), 0.150 (DCC) 
• R-Value Work:  0.129 (Depositor), 0.130 (DCC) 
• R-Value Observed: 0.130 (Depositor) 

Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.498	α = 90
b = 83.498	β = 90
c = 83.498	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-10-26 
Deposition Author(s): Domsic, J.F., Robbins, A.H., McKenna, R.

Revision History  

• Version 1.0: 2011-10-26
  Type: Initial release
  
• Version 1.1: 2017-11-08
  Changes: Refinement description
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations