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Sodium in PDB 1svy: Severin Domain 2, 1.75 Angstrom Crystal Structure

Protein crystallography data

The structure of Severin Domain 2, 1.75 Angstrom Crystal Structure, PDB code: 1svy was solved by Y.A.Puius, E.V.Fedorov, L.Eichinger, M.Sullivan, M.Schleicher, S.C.Almo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.75
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 33.352, 49.218, 62.790, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 24.6

Other elements in 1svy:

The structure of Severin Domain 2, 1.75 Angstrom Crystal Structure also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Severin Domain 2, 1.75 Angstrom Crystal Structure (pdb code 1svy). 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 Severin Domain 2, 1.75 Angstrom Crystal Structure, PDB code: 1svy:

Sodium binding site 1 out of 1 in 1svy

Go back to Sodium Binding Sites List in 1svy
Sodium binding site 1 out of 1 in the Severin Domain 2, 1.75 Angstrom Crystal Structure


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Severin Domain 2, 1.75 Angstrom Crystal Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na2

b:23.8
occ:1.00
O A:GLY187 2.4 13.2 1.0
OD1 A:ASP188 2.4 13.9 1.0
OE2 A:GLU210 2.4 14.3 1.0
O A:HOH34 2.6 25.6 1.0
OE1 A:GLU210 2.8 15.2 1.0
CD A:GLU210 2.9 12.9 1.0
C A:GLY187 3.3 14.1 1.0
O A:HOH55 3.4 31.1 1.0
CG A:ASP188 3.6 13.5 1.0
CA A:ASP188 3.8 13.6 1.0
N A:ASP188 3.9 14.5 1.0
N A:ASP169 4.1 19.5 1.0
CB A:ASP188 4.2 14.1 1.0
CA A:GLY187 4.3 13.2 1.0
CA A:ASP169 4.4 21.5 1.0
CG A:GLU210 4.4 10.9 1.0
O A:HOH71 4.5 34.4 1.0
OD2 A:ASP188 4.6 12.7 1.0
CA A:SER206 4.6 14.0 1.0
N A:GLY168 4.7 14.7 1.0
OD1 A:ASP169 4.8 33.6 1.0
N A:SER207 4.8 13.4 1.0
CB A:ASP169 4.8 26.4 1.0
O A:LYS205 4.8 17.1 1.0
CA A:SER167 4.9 13.1 1.0
O A:HOH53 4.9 30.8 1.0

Reference:

Y.A.Puius, E.V.Fedorov, L.Eichinger, M.Schleicher, S.C.Almo. Mapping the Functional Surface of Domain 2 in the Gelsolin Superfamily. Biochemistry V. 39 5322 2000.
ISSN: ISSN 0006-2960
PubMed: 10820002
DOI: 10.1021/BI992364D
Page generated: Tue Dec 15 05:36:12 2020

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