Cobalt »
PDB 5vtd-5zt2 »
5yrt »
Cobalt in PDB 5yrt: Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
Enzymatic activity of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
All present enzymatic activity of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal:
4.2.1.28;
4.2.1.28;
Protein crystallography data
The structure of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal, PDB code: 5yrt
was solved by
N.Shibata,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
| Resolution Low / High (Å) | 47.00 / 1.70 |
| Space group | P 1 |
| Cell size a, b, c (Å), α, β, γ (°) | 72.687, 95.459, 114.567, 80.78, 87.58, 81.10 |
| R / Rfree (%) | 15 / 18.7 |
Other elements in 5yrt:
The structure of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal also contains other interesting chemical elements:
| Potassium | (K) | 8 atoms |
| Calcium | (Ca) | 4 atoms |
| Chlorine | (Cl) | 12 atoms |
Cobalt Binding Sites:
The binding sites of Cobalt atom in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
(pdb code 5yrt). This binding sites where shown within
5.0 Angstroms radius around Cobalt atom.
In total 4 binding sites of Cobalt where determined in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal, PDB code: 5yrt:
Jump to Cobalt binding site number: 1; 2; 3; 4;
In total 4 binding sites of Cobalt where determined in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal, PDB code: 5yrt:
Jump to Cobalt binding site number: 1; 2; 3; 4;
Cobalt binding site 1 out of 4 in 5yrt
Go back to
Cobalt Binding Sites List in 5yrt
Cobalt binding site 1 out
of 4 in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Cobalt with other atoms in the Co binding
site number 1 of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal within 5.0Å range:
|
Cobalt binding site 2 out of 4 in 5yrt
Go back to
Cobalt Binding Sites List in 5yrt
Cobalt binding site 2 out
of 4 in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Cobalt with other atoms in the Co binding
site number 2 of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal within 5.0Å range:
|
Cobalt binding site 3 out of 4 in 5yrt
Go back to
Cobalt Binding Sites List in 5yrt
Cobalt binding site 3 out
of 4 in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Cobalt with other atoms in the Co binding
site number 3 of Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal within 5.0Å range:
|
Cobalt binding site 4 out of 4 in 5yrt
Go back to
Cobalt Binding Sites List in 5yrt
Cobalt binding site 4 out
of 4 in the Diol Dehydratase, Adocbl/Substrate-Free, Anaerobically-Prepared Crystal
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Cobalt with other atoms in the Co binding
site number 4 of Diol Dehydratase, Adocbl/Substrate-Free, 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: Sun Jul 13 20:45:35 2025
ISSN: ESSN 1521-3773
PubMed: 29797764
DOI: 10.1002/ANIE.201803591
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