Sodium in PDB 4kq7: Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution

The structure of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution, PDB code: 4kq7 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)	47.35 / 1.62
Space group	P 21 3
Cell size a, b, c (Å), α, β, γ (°)	133.926, 133.926, 133.926, 90.00, 90.00, 90.00
R / Rfree (%)	13.8 / 15.7

The binding sites of Sodium atom in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution (pdb code 4kq7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 7 binding sites of Sodium where determined in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution, PDB code: 4kq7:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7;

Sodium binding site 1 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 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 DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:16.3 occ:1.00 O A:GLY75 2.4 16.1 1.0 O A:HOH646 2.5 16.7 1.0 O A:HOH687 2.5 20.9 1.0 OD1 A:ASP78 2.6 21.0 1.0 OD2 A:ASP78 2.8 21.5 1.0 CG A:ASP78 3.0 19.1 1.0 NA A:NA502 3.1 28.7 1.0 C A:GLY75 3.6 17.4 1.0 NA A:NA503 4.1 15.8 1.0 CA A:ASN76 4.1 15.5 1.0 O A:GLY74 4.1 16.2 1.0 CB A:ASP71 4.2 16.2 1.0 N A:ASN76 4.3 15.0 1.0 C A:GLY74 4.3 17.1 1.0 OD1 A:ASN76 4.4 16.2 1.0 CB A:ASP78 4.6 14.6 1.0 N A:ASP71 4.6 15.7 1.0 N A:GLY75 4.6 15.7 1.0 CA A:GLY75 4.7 15.2 1.0 OG1 A:THR70 4.8 30.7 1.0 C A:ASN76 4.9 20.0 1.0 CA A:GLY74 4.9 14.6 1.0 O A:ASP71 5.0 16.2 1.0 CB A:ASN76 5.0 14.6 1.0

Sodium binding site 2 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:28.7 occ:1.00 OG1 A:THR70 2.2 30.7 1.0 O A:HOH646 2.4 16.7 1.0 OD1 A:ASP78 2.6 21.0 1.0 CB A:THR70 3.0 23.9 1.0 NA A:NA501 3.1 16.3 1.0 CA A:THR70 3.4 15.6 1.0 CG A:ASP78 3.4 19.1 1.0 N A:ASP71 3.7 15.7 1.0 OD2 A:ASP78 3.9 21.5 1.0 C A:THR70 3.9 18.2 1.0 O A:HOH811 4.3 30.9 1.0 CG2 A:THR70 4.4 24.6 1.0 CB A:ASP78 4.4 14.6 1.0 O A:HOH687 4.6 20.9 1.0 O A:ASP71 4.6 16.2 1.0 N A:THR70 4.7 14.9 1.0 CA A:ASP71 4.8 15.0 1.0 CB A:ASP71 5.0 16.2 1.0

Sodium binding site 3 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na503 b:15.8 occ:1.00 OD2 A:ASP78 2.2 21.5 1.0 OD1 A:ASN76 2.3 16.2 1.0 CG A:ASP78 3.3 19.1 1.0 CG A:ASN76 3.5 20.6 1.0 CB A:ASP78 4.0 14.6 1.0 NA A:NA501 4.1 16.3 1.0 ND2 A:ASN76 4.3 18.0 1.0 OD1 A:ASP78 4.3 21.0 1.0 O A:HOH755 4.5 26.5 1.0 CA A:ASN76 4.6 15.5 1.0 CB A:ASN76 4.6 14.6 1.0 O A:ASN76 4.7 20.9 1.0 C A:ASN76 4.9 20.0 1.0

Sodium binding site 4 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na501 b:18.3 occ:1.00 O B:HOH634 2.4 16.8 1.0 O B:GLY75 2.4 18.0 1.0 O B:HOH682 2.6 20.1 1.0 OD1 B:ASP78 2.6 22.4 1.0 OD2 B:ASP78 2.8 21.2 1.0 CG B:ASP78 3.1 20.0 1.0 NA B:NA503 3.2 34.0 1.0 C B:GLY75 3.6 18.8 1.0 CA B:ASN76 4.1 15.6 1.0 O B:GLY74 4.1 20.1 1.0 NA B:NA504 4.2 16.8 1.0 CB B:ASP71 4.2 17.2 1.0 N B:ASN76 4.3 16.1 1.0 C B:GLY74 4.3 21.9 1.0 OD1 B:ASN76 4.4 17.2 1.0 O B:HOH833 4.5 35.6 1.0 N B:ASP71 4.6 17.3 1.0 CB B:ASP78 4.6 15.2 1.0 N B:GLY75 4.6 19.0 1.0 CA B:GLY75 4.7 18.1 1.0 OG1 B:THR70 4.7 35.9 1.0 C B:ASN76 4.9 19.9 1.0 CA B:GLY74 4.9 19.5 1.0 O B:ASP71 4.9 17.8 1.0 CA B:ASP71 5.0 16.6 1.0

Sodium binding site 5 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na502 b:40.0 occ:1.00 O3 B:PG4506 2.2 62.4 1.0 O B:THR241 2.3 35.5 1.0 O1 B:PG4506 2.3 65.9 1.0 O B:HOH951 2.5 46.2 1.0 O4 B:PG4506 2.7 60.8 1.0 O2 B:PG4506 2.7 64.0 1.0 C5 B:PG4506 3.0 62.3 1.0 O5 B:PG4506 3.1 56.9 1.0 C1 B:PG4506 3.2 66.0 1.0 C4 B:PG4506 3.3 62.5 1.0 C2 B:PG4506 3.3 65.1 1.0 C3 B:PG4506 3.3 63.3 1.0 C B:THR241 3.4 34.4 1.0 C6 B:PG4506 3.4 61.8 1.0 C7 B:PG4506 3.6 59.5 1.0 C8 B:PG4506 3.8 57.0 1.0 CA B:THR241 4.0 29.1 1.0 CB B:THR241 4.3 36.9 1.0 N B:THR242 4.4 28.7 1.0 CA B:THR242 4.7 26.5 1.0

Sodium binding site 6 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na503 b:34.0 occ:1.00 OG1 B:THR70 2.2 35.9 1.0 O B:HOH634 2.6 16.8 1.0 OD1 B:ASP78 2.6 22.4 1.0 CB B:THR70 2.9 27.9 1.0 NA B:NA501 3.2 18.3 1.0 CA B:THR70 3.3 15.8 1.0 CG B:ASP78 3.4 20.0 1.0 N B:ASP71 3.6 17.3 1.0 OD2 B:ASP78 3.8 21.2 1.0 C B:THR70 3.9 18.7 1.0 CG2 B:THR70 4.3 27.7 1.0 CB B:ASP78 4.3 15.2 1.0 O B:HOH833 4.4 35.6 1.0 N B:THR70 4.6 15.7 1.0 O B:HOH831 4.6 35.4 1.0 O B:ASP71 4.7 17.8 1.0 CA B:ASP71 4.8 16.6 1.0 O B:HOH682 4.8 20.1 1.0 O B:THR70 5.0 16.9 1.0

Sodium binding site 7 out of 7 in the Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Crystal Structure of A DUF2961 Family Protein (BACUNI_00161) From Bacteroides Uniformis Atcc 8492 at 1.62 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Na504 b:16.8 occ:1.00 OD2 B:ASP78 2.2 21.2 1.0 OD1 B:ASN76 2.3 17.2 1.0 CG B:ASP78 3.4 20.0 1.0 CG B:ASN76 3.5 18.5 1.0 CB B:ASP78 4.0 15.2 1.0 NA B:NA501 4.2 18.3 1.0 ND2 B:ASN76 4.2 15.7 1.0 O B:HOH710 4.3 24.6 1.0 OD1 B:ASP78 4.3 22.4 1.0 CA B:ASN76 4.6 15.6 1.0 CB B:ASN76 4.6 17.6 1.0 O B:ASN76 4.6 20.1 1.0 C B:ASN76 4.9 19.9 1.0

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.