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Nickel in PDB 6s0s: The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Enzymatic activity of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
All present enzymatic activity of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate:
1.14.11.37;
1.14.11.37;
Protein crystallography data
The structure of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate, PDB code: 6s0s
was solved by
B.Mrugala,
P.J.Porebski,
E.Niedzialkowska,
W.Minor,
T.Borowski,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
| Resolution Low / High (Å) | 47.27 / 2.40 |
| Space group | P 1 21 1 |
| Cell size a, b, c (Å), α, β, γ (°) | 50.083, 184.582, 110.333, 90.00, 94.97, 90.00 |
| R / Rfree (%) | 17.3 / 20.4 |
Other elements in 6s0s:
The structure of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate also contains other interesting chemical elements:
| Chlorine | (Cl) | 3 atoms |
Nickel Binding Sites:
The binding sites of Nickel atom in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
(pdb code 6s0s). This binding sites where shown within
5.0 Angstroms radius around Nickel atom.
In total 6 binding sites of Nickel where determined in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate, PDB code: 6s0s:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6;
In total 6 binding sites of Nickel where determined in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate, PDB code: 6s0s:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6;
Nickel binding site 1 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 1 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 1 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Nickel binding site 2 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 2 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 2 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Nickel binding site 3 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 3 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 3 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Nickel binding site 4 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 4 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 4 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Nickel binding site 5 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 5 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 5 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Nickel binding site 6 out of 6 in 6s0s
Go back to
Nickel Binding Sites List in 6s0s
Nickel binding site 6 out
of 6 in the The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate
Mono view
Stereo pair view
Mono view
Stereo pair view
A full contact list of Nickel with other atoms in the Ni binding
site number 6 of The Crystal Structure of Kanamycin B Dioxygenase (Kanj) From Streptomyces Kanamyceticus in Complex with Nickel, Ribostamycin B and 2-Oxoglutarate within 5.0Å range:
|
Reference:
B.Mrugala,
A.Milaczewska,
P.J.Porebski,
E.Niedzialkowska,
M.Guzik,
W.Minor,
T.Borowski.
A Study on the Structure, Mechanism, and Biochemistry of Kanamycin B Dioxygenase (Kanj)-An Enzyme with A Broad Range of Substrates. Febs J. 2020.
ISSN: ISSN 1742-464X
PubMed: 32592631
DOI: 10.1111/FEBS.15462
Page generated: Thu Oct 10 08:50:41 2024
ISSN: ISSN 1742-464X
PubMed: 32592631
DOI: 10.1111/FEBS.15462
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