Sodium in PDB 8sbf: Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi

The structure of Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi, PDB code: 8sbf was solved by C.Momany, M.Nune, J.C.Brondani, D.Afful, E.Neidle, N.R.Galloway, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.45 / 2.29
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	106.597, 109.69, 110.268, 90, 90, 90
R / Rfree (%)	21.1 / 25.8

The structure of Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Sodium atom in the Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi (pdb code 8sbf). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi, PDB code: 8sbf:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:76.4 occ:1.00 O A:HOH611 2.6 53.0 1.0 O A:LEU57 2.6 61.3 1.0 HA A:ALA15 2.8 64.1 1.0 O A:HOH602 3.0 73.0 1.0 HA A:GLN58 3.0 70.5 1.0 HA2 A:GLY18 3.0 66.0 1.0 O A:VAL14 3.4 42.0 1.0 HE2 A:PHE50 3.5 51.7 1.0 O A:ALA15 3.5 57.5 1.0 H A:LEU59 3.6 66.0 1.0 CA A:ALA15 3.7 53.3 1.0 C A:LEU57 3.7 61.5 1.0 O A:HOH639 3.9 71.0 1.0 CA A:GLN58 3.9 58.6 1.0 HG A:LEU59 3.9 61.1 1.0 C A:ALA15 3.9 55.4 1.0 HD2 A:PHE50 4.0 54.1 1.0 CA A:GLY18 4.0 54.9 1.0 H A:GLY18 4.1 69.5 1.0 CE2 A:PHE50 4.2 43.0 1.0 N A:LEU59 4.2 54.9 1.0 N A:GLN58 4.2 52.6 1.0 C A:VAL14 4.3 36.7 1.0 N A:GLY18 4.4 57.8 1.0 HA3 A:GLY18 4.4 66.0 1.0 CD2 A:PHE50 4.4 45.0 1.0 HG11 A:VAL14 4.5 51.7 1.0 N A:ALA15 4.5 41.9 1.0 C A:GLN58 4.5 54.9 1.0 HB2 A:LEU57 4.6 63.4 1.0 HB1 A:ALA15 4.6 61.5 1.0 CB A:ALA15 4.7 51.2 1.0 HB2 A:GLN58 4.7 65.5 1.0 C A:GLY18 4.8 53.7 1.0 CG A:LEU59 4.9 50.9 1.0 O A:GLY18 4.9 64.0 1.0 HB2 A:ALA15 4.9 61.5 1.0 CB A:GLN58 4.9 54.5 1.0 CA A:LEU57 5.0 55.8 1.0

Sodium binding site 2 out of 3 in the Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi within 5.0Å range: probe atom residue distance (Å) B Occ C:Na403 b:59.6 occ:1.00 O C:GLY148 2.2 71.5 1.0 ND1 C:HIS270 2.3 70.1 1.0 H C:GLY148 2.7 70.6 1.0 CE1 C:HIS270 3.0 69.3 1.0 HE1 C:HIS270 3.0 83.2 1.0 N C:GLY148 3.1 58.7 1.0 HG13 C:ILE146 3.1 64.2 1.0 O C:PRO268 3.1 62.5 1.0 C C:GLY148 3.2 82.0 1.0 CG C:HIS270 3.3 72.8 1.0 HB2 C:HIS270 3.3 74.2 1.0 O C:HOH639 3.4 67.9 1.0 HG2 C:PRO268 3.5 88.3 1.0 HA C:GLU147 3.6 64.0 1.0 CA C:GLY148 3.6 67.4 1.0 HA C:LEU269 3.7 67.7 1.0 CB C:HIS270 3.8 61.8 1.0 C C:GLU147 3.8 55.2 1.0 H C:HIS270 3.8 67.0 1.0 O C:ILE146 4.0 54.4 1.0 C C:PRO268 4.0 62.0 1.0 HD11 C:ILE146 4.0 67.1 1.0 NE2 C:HIS270 4.0 80.4 1.0 HA2 C:GLY148 4.0 81.0 1.0 CG1 C:ILE146 4.0 53.4 1.0 N C:HIS270 4.1 55.8 1.0 CA C:GLU147 4.1 53.2 1.0 O C:HOH648 4.2 85.6 1.0 CD2 C:HIS270 4.2 73.1 1.0 HA C:SER149 4.2 96.5 1.0 HD12 C:ILE146 4.3 67.1 1.0 N C:SER149 4.3 78.1 1.0 HB2 C:PRO268 4.3 78.0 1.0 C C:ILE146 4.3 58.1 1.0 CD1 C:ILE146 4.3 55.8 1.0 CA C:LEU269 4.4 56.3 1.0 N C:GLU147 4.4 57.4 1.0 C C:LEU269 4.4 61.3 1.0 CG C:PRO268 4.5 73.5 1.0 HA3 C:GLY148 4.5 81.0 1.0 HG12 C:ILE146 4.5 64.2 1.0 N C:LEU269 4.6 59.3 1.0 CA C:HIS270 4.6 54.6 1.0 HB3 C:HIS270 4.6 74.2 1.0 CA C:SER149 4.7 80.4 1.0 HE2 C:HIS270 4.7 96.5 1.0 O C:GLU147 4.7 69.8 1.0 SG C:CYS150 4.7 115.9 1.0 CB C:PRO268 4.8 64.9 1.0 HB C:ILE146 4.8 67.5 1.0 CA C:PRO268 5.0 60.3 1.0 C C:SER149 5.0 83.1 1.0 H C:GLU147 5.0 69.0 1.0 CB C:ILE146 5.0 56.1 1.0

Sodium binding site 3 out of 3 in the Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Full-Length Structure of the Lysr-Type Transcriptional Regulator, ACIAD0746, From Acinetobacter Baylyi within 5.0Å range: probe atom residue distance (Å) B Occ B:Na406 b:74.4 occ:1.00 OE1 B:GLU42 2.4 50.5 1.0 HB3 B:PRO48 3.2 65.2 1.0 CD B:GLU42 3.2 46.0 1.0 HH12 B:ARG52 3.3 93.6 1.0 O B:HOH540 3.5 40.6 1.0 O B:HOH621 3.5 50.1 1.0 HB3 B:GLU42 3.5 49.0 1.0 HH22 B:ARG52 3.6 94.1 1.0 O B:HOH605 3.7 73.0 1.0 HB2 B:GLU42 3.7 49.0 1.0 OE2 B:GLU42 3.8 47.5 1.0 O B:HOH543 3.8 53.3 1.0 HA B:PRO48 3.8 62.1 1.0 NH1 B:ARG52 3.8 77.9 1.0 CB B:GLU42 4.0 40.8 1.0 NH2 B:ARG52 4.0 78.4 1.0 CB B:PRO48 4.0 54.3 1.0 CG B:GLU42 4.2 41.6 1.0 CZ B:ARG52 4.2 89.9 1.0 HH11 B:ARG52 4.3 93.6 1.0 CA B:PRO48 4.4 51.7 1.0 HB2 B:PRO48 4.4 65.2 1.0 HA B:ALA39 4.4 42.1 1.0 HH21 B:ARG52 4.6 94.1 1.0 HG2 B:GLU42 4.7 50.0 1.0 HG3 B:GLU42 4.9 50.0 1.0

C.Momany, M.Nune, J.C.Brondani, D.Afful, E.Neidle, N.R.Galloway. Finr, A Lysr-Type Transcriptional Regulator Involved in Sulfur Homeostasis with Homologs in Diverse Microorganisms To Be Published.