Atomistry » Sodium » PDB 2bii-2c8x » 2bnl
Atomistry »
  Sodium »
    PDB 2bii-2c8x »
      2bnl »

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

Protein crystallography data

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

Sodium Binding Sites:

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 2bnl

Go back to Sodium Binding Sites List in 2bnl
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 2bnl

Go back to Sodium Binding Sites List in 2bnl
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 2bnl

Go back to Sodium Binding Sites List in 2bnl
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

Reference:

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
Page generated: Tue Dec 15 05:46:07 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy