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Sodium in PDB 5nqo: Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus

Protein crystallography data

The structure of Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus, PDB code: 5nqo was solved by A.Basle, S.Platsaki, C.Dennison, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.62 / 1.15
Space group C 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 44.901, 105.691, 45.625, 90.00, 90.00, 90.00
R / Rfree (%) 12.5 / 14.5

Other elements in 5nqo:

The structure of Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus also contains other interesting chemical elements:

Copper (Cu) 22 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus (pdb code 5nqo). 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 Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus, PDB code: 5nqo:

Sodium binding site 1 out of 1 in 5nqo

Go back to Sodium Binding Sites List in 5nqo
Sodium binding site 1 out of 1 in the Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cu(I)-CSP3 (Copper Storage Protein 3) From Methylosinus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na220

b:17.0
occ:1.00
OE2 A:GLU79 1.9 27.0 1.0
O A:HOH352 2.0 18.1 1.0
O A:ARG74 2.1 17.9 1.0
O A:HOH338 2.1 18.2 1.0
O A:HOH346 2.1 22.6 1.0
O A:HOH342 2.1 16.9 1.0
CD A:GLU79 3.1 39.0 1.0
C A:ARG74 3.2 15.0 1.0
CG A:GLU79 3.8 32.3 1.0
CA A:ALA75 4.0 20.5 1.0
N A:ALA75 4.0 18.0 1.0
OE1 A:GLU79 4.1 48.7 1.0
O A:HOH320 4.2 20.7 1.0
O A:HOH361 4.2 25.1 1.0
CB A:ARG74 4.2 15.0 1.0
CA A:ARG74 4.2 13.3 1.0
O A:HOH340 4.3 32.7 1.0
O A:HOH343 4.3 17.1 1.0
C A:ALA75 4.7 26.1 1.0
N A:ALA76 4.8 35.0 1.0

Reference:

A.Basle, S.Platsaki, C.Dennison. Visualizing Biological Copper Storage: the Importance of Thiolate-Coordinated Tetranuclear Clusters. Angew. Chem. Int. Ed. Engl. V. 56 8697 2017.
ISSN: ESSN 1521-3773
PubMed: 28504850
DOI: 10.1002/ANIE.201703107
Page generated: Tue Dec 15 11:22:09 2020

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