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Sodium in PDB 4z48: Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution

Protein crystallography data

The structure of Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution, PDB code: 4z48 was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.55 / 1.75
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 42.400, 56.340, 65.560, 100.71, 97.04, 109.01
R / Rfree (%) 21 / 24.8

Other elements in 4z48:

The structure of Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution also contains other interesting chemical elements:

Iodine (I) 7 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution (pdb code 4z48). 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 Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution, PDB code: 4z48:

Sodium binding site 1 out of 1 in 4z48

Go back to Sodium Binding Sites List in 4z48
Sodium binding site 1 out of 1 in the Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of A DUF1329 Family Protein (DESPIG_00262) From Desulfovibrio Piger Atcc 29098 at 1.75 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na307

b:24.4
occ:1.00
O B:HOH436 2.2 30.4 1.0
O B:GLY108 2.2 35.3 1.0
O B:TYR106 2.3 27.2 1.0
OE2 B:GLU155 2.3 37.7 1.0
OD2 B:ASP152 2.3 39.4 1.0
O B:HOH512 2.5 33.6 1.0
CD B:GLU155 3.2 41.1 1.0
C B:GLY108 3.4 37.3 1.0
CG B:ASP152 3.5 33.4 1.0
C B:TYR106 3.5 27.7 1.0
N B:GLY108 3.7 29.8 1.0
CG B:GLU155 3.8 33.1 1.0
OD1 B:ASP113 3.9 31.9 1.0
O B:HOH554 4.0 27.7 1.0
C B:ARG107 4.0 32.0 1.0
CA B:GLY108 4.1 31.6 1.0
OE1 B:GLU155 4.1 34.4 1.0
OD1 B:ASP152 4.3 36.6 1.0
O B:HOH502 4.3 39.6 1.0
N B:ARG107 4.4 27.1 1.0
CA B:ARG107 4.4 27.9 1.0
CB B:ASP152 4.5 27.9 1.0
N B:LEU109 4.5 36.0 1.0
O B:GLN111 4.5 32.6 1.0
O B:ARG107 4.5 33.0 1.0
CA B:TYR106 4.6 24.2 1.0
N B:TYR106 4.7 24.3 1.0
CG B:ASP113 4.7 30.5 1.0
CD2 B:LEU109 4.7 42.2 1.0
CA B:LEU109 4.8 36.7 1.0
OD2 B:ASP113 4.9 31.6 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Tue Dec 15 10:05:20 2020

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