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Potassium in PDB 7ypr: Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1.

Enzymatic activity of Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1.

All present enzymatic activity of Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1.:
1.15.1.1;

Protein crystallography data

The structure of Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1., PDB code: 7ypr was solved by K.-S.Sim, Y.Fukuda, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.87 / 2.10
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 105.825, 105.825, 76.956, 90, 90, 120
R / Rfree (%) 18 / 22.8

Other elements in 7ypr:

The structure of Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1. also contains other interesting chemical elements:

Zinc (Zn) 6 atoms
Copper (Cu) 6 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1. (pdb code 7ypr). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1., PDB code: 7ypr:

Potassium binding site 1 out of 1 in 7ypr

Go back to Potassium Binding Sites List in 7ypr
Potassium binding site 1 out of 1 in the Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structural Basis of A Superoxide Dismutase From A Tardigrade, Ramazzottius Varieornatus Strain Yokozuna-1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K203

b:59.0
occ:1.00
 O B:HOH309 2.7 41.0 1.0
O B:THR143 2.8 31.1 1.0
O C:HOH322 2.8 33.6 1.0
O C:THR143 2.8 28.3 1.0
O C:HOH384 3.0 42.9 1.0
O C:HOH380 3.2 42.1 1.0
C B:THR143 4.0 28.5 1.0
C C:THR143 4.0 35.7 1.0
OD1 B:ASP65 4.4 51.2 1.0
O C:ASP65 4.5 30.3 1.0
O B:ASP65 4.7 31.2 1.0
CG B:ASP65 4.7 47.8 1.0
OD2 C:ASP65 4.7 44.2 1.0
CA B:VAL144 4.8 25.8 1.0
CG C:ASP65 4.8 51.3 1.0
CA C:VAL144 4.8 26.4 1.0
N B:VAL144 4.8 29.2 1.0
O B:VAL144 4.8 30.9 1.0
CA B:THR143 4.8 28.6 1.0
O C:VAL144 4.9 29.7 1.0
CB B:THR143 4.9 34.2 1.0
CA C:ASP65 4.9 28.8 1.0
CA B:ASP65 4.9 33.0 1.0
N C:VAL144 4.9 27.8 1.0
CA C:THR143 4.9 31.5 1.0
CB C:THR143 4.9 30.2 1.0
O C:HOH358 5.0 37.0 1.0

Reference:

K.S.Sim, T.Inoue. Structure of A Superoxide Dismutase From A Tardigrade: Ramazzottius Varieornatus Strain Yokozuna-1. Acta Crystallogr.,Sect.F V. 79 169 2023.
ISSN: ESSN 2053-230X
PubMed: 37358501
DOI: 10.1107/S2053230X2300523X
Page generated: Mon Aug 12 21:42:59 2024

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