Sodium in PDB 2bnl: The Structure of the N-Terminal Domain of Rsbr

The structure of The Structure of the N-Terminal Domain of Rsbr, PDB code: 2bnl was solved by J.W.Murray, O.Delumeau, R.J.Lewis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.24 / 2.00
Space group	P 32 1 2
Cell size a, b, c (Å), α, β, γ (°)	136.062, 136.062, 113.296, 90.00, 90.00, 120.00
R / Rfree (%)	15.4 / 19.8

The binding sites of Sodium atom in the The Structure of the N-Terminal Domain of Rsbr (pdb code 2bnl). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the The Structure of the N-Terminal Domain of Rsbr, PDB code: 2bnl:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the The Structure of the N-Terminal Domain of Rsbr


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Structure of the N-Terminal Domain of Rsbr within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1137 b:36.1 occ:1.00 O C:HOH2049 2.3 31.4 1.0 O B:HOH2083 2.3 30.9 1.0 O B:HOH2079 2.4 38.3 1.0 O C:HOH2022 2.4 41.1 1.0 OG B:SER65 2.5 30.6 1.0 O B:HOH2081 2.5 39.2 1.0 CB B:SER65 3.4 33.7 1.0 OE1 B:GLN66 3.7 31.8 1.0 NE2 B:GLN66 4.0 32.4 1.0 O B:HOH2076 4.2 43.3 1.0 O B:ALA62 4.2 34.4 1.0 CD B:GLN66 4.3 30.7 1.0 ND2 C:ASN44 4.3 33.1 1.0 O B:HOH2078 4.3 54.0 1.0 O C:HOH2051 4.3 53.6 1.0 N B:SER65 4.4 32.8 1.0 O B:HOH2080 4.4 46.3 1.0 CA B:SER65 4.4 33.8 1.0 OD1 C:ASN44 4.5 34.6 1.0 CG C:ASN44 4.8 33.5 1.0 O B:HOH2075 5.0 49.5 1.0

Sodium binding site 2 out of 3 in the The Structure of the N-Terminal Domain of Rsbr


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Structure of the N-Terminal Domain of Rsbr within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1137 b:33.2 occ:1.00 O E:HOH2043 2.2 32.5 1.0 O C:HOH2070 2.3 33.9 1.0 O E:HOH2018 2.4 43.5 1.0 O C:HOH2075 2.4 43.0 1.0 O C:HOH2076 2.5 37.5 1.0 OG C:SER65 2.5 35.6 1.0 CB C:SER65 3.5 36.6 1.0 OE1 C:GLN66 3.9 30.9 1.0 NE2 C:GLN66 4.0 31.4 1.0 ND2 E:ASN44 4.1 33.2 1.0 O C:HOH2071 4.2 42.2 1.0 O C:ALA62 4.2 32.2 1.0 OD1 E:ASN44 4.3 38.6 1.0 CD C:GLN66 4.4 31.6 1.0 O E:HOH2044 4.4 50.3 1.0 N C:SER65 4.4 32.5 1.0 O C:HOH2078 4.5 48.2 1.0 CA C:SER65 4.6 33.3 1.0 CG E:ASN44 4.7 32.4 1.0 O C:HOH2069 4.8 48.2 1.0

Sodium binding site 3 out of 3 in the The Structure of the N-Terminal Domain of Rsbr


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of The Structure of the N-Terminal Domain of Rsbr within 5.0Å range: probe atom residue distance (Å) B Occ F:Na1137 b:39.4 occ:1.00 O F:HOH2083 2.2 32.1 1.0 O F:HOH2032 2.4 36.3 1.0 O F:HOH2088 2.5 35.6 1.0 O F:HOH2089 2.5 41.1 1.0 OG F:SER65 2.6 33.6 1.0 CB F:SER65 3.6 35.2 1.0 OE1 F:GLN66 3.7 32.8 1.0 O F:HOH2084 3.9 40.3 1.0 NE2 F:GLN66 3.9 29.3 1.0 O F:ALA62 4.0 34.3 1.0 CD F:GLN66 4.2 30.5 1.0 N F:SER65 4.4 32.8 1.0 O F:HOH2087 4.4 46.9 1.0 CA F:SER65 4.6 32.0 1.0

J.W.Murray, O.Delumeau, R.J.Lewis. Structure of A Nonheme Globin in Environmental Stress Signaling. Proc.Natl.Acad.Sci.Usa V. 102 17320 2005.
ISSN: ISSN 0027-8424
PubMed: 16301540
DOI: 10.1073/PNAS.0506599102