ISDA

Deposition Date 2008-06-04

Release Date 2009-07-14

Last Version Date 2023-12-13

Entry Detail

PDB ID:

2VVB

Keywords:

LYASE

Title:

Human carbonic anhydrase II in complex with bicarbonate

Biological Source:

Source Organism:

HOMO SAPIENS (Taxon ID: 9606)

Host Organism:

ESCHERICHIA COLI

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.66 Å

R-Value Free:

0.21

R-Value Work:

0.16

R-Value Observed:

0.17

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:CARBONIC ANHYDRASE 2
Gene (Uniprot):CA2
Chain IDs:A (auth: X)
Chain Length:260
Number of Molecules:1
Biological Source:HOMO SAPIENS

UniProt ID:P00918 Pfam ID:PF00194 EC:4.2.1.1

Ligand Molecules

BCT

CO2

GOL

SO4

Primary Citation

Structural Study of X-Ray Induced Activation of Carbonic Anhydrase.

Sjoblom, B, Polentarutti, M, Djinovic-Carugo, K.Show

Proc.Natl.Acad.Sci.USA 106 10609 ? (2009)

PMID: 19520834 DOI: 10.1073/PNAS.0904184106

Abstact

Carbonic anhydrase, a zinc metalloenzyme, catalyzes the reversible hydration of carbon dioxide to bicarbonate. It is involved in processes connected with acid-base homeostasis, respiration, and photosynthesis. More than 100 distinct human carbonic anhydrase II (HCAII) 3D structures have been generated in last 3 decades [Liljas A, et al. (1972) Nat New Biol 235:131-137], but a structure of an HCAII in complex with CO(2) or HCO(3)(-) has remained elusive. Here, we report previously undescribed structures of HCAII:CO(2) and HCAII:HCO(3)(-) complexes, together with a 3D molecular film of the enzymatic reaction observed successively in the same crystal after extended exposure to X-ray. We demonstrate that the unexpected enzyme activation was caused in an X-ray dose-dependent manner. Although X-ray damage to macromolecular samples has long been recognized [Ravelli RB, Garman EF (2006) Curr Opin Struct Biol 16:624-629], the detailed structural analysis reports on X-ray-driven reactions have been very rare in literature to date. Here, we report on enzyme activation and the associated chemical reaction in a crystal at 100 K. We propose mechanisms based on water photoradiolysis and/or electron radiolysis as the main cause of enzyme activation.

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Primary Citation of related structures