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Calcium in PDB 5yrv: Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
Enzymatic activity of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
All present enzymatic activity of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal:
4.2.1.28;
4.2.1.28;
Protein crystallography data
The structure of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal, PDB code: 5yrv
was solved by
N.Shibata,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
| Resolution Low / High (Å) | 44.00 / 1.55 |
| Space group | P 1 |
| Cell size a, b, c (Å), α, β, γ (°) | 72.777, 95.666, 114.514, 80.61, 87.77, 81.25 |
| R / Rfree (%) | 15.5 / 18.1 |
Other elements in 5yrv:
The structure of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal also contains other interesting chemical elements:
| Cobalt | (Co) | 4 atoms |
| Potassium | (K) | 8 atoms |
| Chlorine | (Cl) | 12 atoms |
Calcium Binding Sites:
The binding sites of Calcium atom in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
(pdb code 5yrv). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal, PDB code: 5yrv:
Jump to Calcium binding site number: 1; 2; 3; 4;
In total 4 binding sites of Calcium where determined in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal, PDB code: 5yrv:
Jump to Calcium binding site number: 1; 2; 3; 4;
Calcium binding site 1 out of 4 in 5yrv
Go back to
Calcium Binding Sites List in 5yrv
Calcium binding site 1 out
of 4 in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal within 5.0Å range:
|
Calcium binding site 2 out of 4 in 5yrv
Go back to
Calcium Binding Sites List in 5yrv
Calcium binding site 2 out
of 4 in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal within 5.0Å range:
|
Calcium binding site 3 out of 4 in 5yrv
Go back to
Calcium Binding Sites List in 5yrv
Calcium binding site 3 out
of 4 in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal within 5.0Å range:
|
Calcium binding site 4 out of 4 in 5yrv
Go back to
Calcium Binding Sites List in 5yrv
Calcium binding site 4 out
of 4 in the Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Diol Dehydratase, Adocbl/1,2-Propanediol, Anaerobically-Prepared Crystal within 5.0Å range:
|
Reference:
N.Shibata,
Y.Sueyoshi,
Y.Higuchi,
T.Toraya.
Direct Participation of A Peripheral Side Chain of A Corrin Ring in Coenzyme B12CATALYSIS. Angew. Chem. Int. Ed. Engl. V. 57 7830 2018.
ISSN: ESSN 1521-3773
PubMed: 29797764
DOI: 10.1002/ANIE.201803591
Page generated: Wed Jul 9 12:04:03 2025
ISSN: ESSN 1521-3773
PubMed: 29797764
DOI: 10.1002/ANIE.201803591
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