Sodium in PDB 6op8: S. Pombe UBC7/U7BR Complex

Enzymatic activity of S. Pombe UBC7/U7BR Complex

All present enzymatic activity of S. Pombe UBC7/U7BR Complex:
2.3.2.23;

Protein crystallography data

The structure of S. Pombe UBC7/U7BR Complex, PDB code: 6op8 was solved by Z.S.Hann, C.D.Lima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.26 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 26.715, 79.047, 94.521, 90.00, 90.00, 90.00
R / Rfree (%) 15.5 / 18.8

Other elements in 6op8:

The structure of S. Pombe UBC7/U7BR Complex also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the S. Pombe UBC7/U7BR Complex (pdb code 6op8). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the S. Pombe UBC7/U7BR Complex, PDB code: 6op8:

Sodium binding site 1 out of 1 in 6op8

Go back to Sodium Binding Sites List in 6op8
Sodium binding site 1 out of 1 in the S. Pombe UBC7/U7BR Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of S. Pombe UBC7/U7BR Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na203

b:36.6
occ:1.00
OD1 A:ASP34 2.0 26.1 1.0
N A:PHE36 2.9 6.0 1.0
CD2 A:PHE36 3.0 11.0 1.0
CB A:PHE36 3.1 9.1 1.0
CG A:ASP34 3.1 23.2 1.0
C A:ASP34 3.2 8.6 1.0
CA A:ASP34 3.2 9.2 1.0
N A:PHE35 3.3 8.8 1.0
O A:HOH358 3.5 24.2 1.0
CG A:PHE36 3.5 7.6 1.0
CA A:PHE36 3.5 5.6 1.0
CB A:ASP34 3.7 15.3 1.0
O A:ASP34 3.8 8.7 1.0
C A:PHE35 3.9 7.0 1.0
CE2 A:PHE36 4.1 9.5 1.0
OD2 A:ASP34 4.1 28.7 1.0
CA A:PHE35 4.2 6.3 1.0
C A:PHE36 4.2 7.0 1.0
N A:THR37 4.3 6.2 1.0
N A:ASP34 4.5 12.4 1.0
O A:ASP33 4.6 19.9 1.0
CD1 A:PHE36 4.9 9.1 1.0
CB A:PHE35 4.9 9.1 1.0
OG1 A:THR37 4.9 12.2 1.0
C A:ASP33 5.0 18.9 1.0

Reference:

Z.S.Hann, M.B.Metzger, A.M.Weissman, C.D.Lima. Crystal Structure of the Schizosaccharomyces Pombe U7BR E2-Binding Region in Complex with UBC7. Acta Crystallogr.,Sect.F V. 75 552 2019.
ISSN: ESSN 2053-230X
PubMed: 31397327
DOI: 10.1107/S2053230X19009786
Page generated: Tue Dec 15 12:43:37 2020

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