7C5W

Crystal structure of the iota-carbonic anhydrase from cyanobacterium complexed with iodide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Characterization of a novel type of carbonic anhydrase that acts without metal cofactors.

Hirakawa, Y.Senda, M.Fukuda, K.Yu, H.Y.Ishida, M.Taira, M.Kinbara, K.Senda, T.

(2021) BMC Biol 19: 105-105

  • DOI: 10.1186/s12915-021-01039-8
  • Primary Citation of Related Structures:  
    7C5Y, 7C5W, 7C5X, 7C5V

  • PubMed Abstract: 
  • Carbonic anhydrases (CAs) are universal metalloenzymes that catalyze the reversible conversion of carbon dioxide (CO 2 ) and bicarbonate (HCO 3 - ). They are involved in various biological processes, including pH control, respiration, and photosynthesis ...

    Carbonic anhydrases (CAs) are universal metalloenzymes that catalyze the reversible conversion of carbon dioxide (CO 2 ) and bicarbonate (HCO 3 - ). They are involved in various biological processes, including pH control, respiration, and photosynthesis. To date, eight evolutionarily unrelated classes of CA families (α, β, γ, δ, ζ, η, θ, and ι) have been identified. All are characterized by an active site accommodating the binding of a metal cofactor, which is assumed to play a central role in catalysis. This feature is thought to be the result of convergent evolution.


    Organizational Affiliation

    Faculty of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, 305-8572, Japan. toshiya.senda@kek.jp.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
iota-carbonic anhydraseA, B178Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: all2909
UniProt
Find proteins for Q8YT18 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore Q8YT18 
Go to UniProtKB:  Q8YT18
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IOD (Subject of Investigation/LOI)
Query on IOD

Download Ideal Coordinates CCD File 
C [auth A], D [auth B]IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.519α = 90
b = 83.006β = 90
c = 88.136γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
CRANK2phasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data

  • Deposited Date: 2020-05-20 
  • Released Date: 2021-04-28 
  • Deposition Author(s): Senda, M., Senda, T.

Funding OrganizationLocationGrant Number
Japan Agency for Medical Research and Development (AMED)JapanJP17am0101001

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-28
    Type: Initial release
  • Version 1.1: 2021-08-25
    Changes: Database references