Potassium in PDB 6vwo: Crystal Structure of E. Coli Guanosine Kinase

All present enzymatic activity of Crystal Structure of E. Coli Guanosine Kinase:
2.7.1.73;

The structure of Crystal Structure of E. Coli Guanosine Kinase, PDB code: 6vwo was solved by B.Wang, R.A.Grant, M.T.Laub, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.50 / 1.78
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	118.117, 118.117, 75.447, 90.00, 90.00, 120.00
R / Rfree (%)	18.1 / 20.5

The structure of Crystal Structure of E. Coli Guanosine Kinase also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Potassium atom in the Crystal Structure of E. Coli Guanosine Kinase (pdb code 6vwo). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of E. Coli Guanosine Kinase, PDB code: 6vwo:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Crystal Structure of E. Coli Guanosine Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of E. Coli Guanosine Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:K504 b:30.2 occ:0.50 O A:THR133 2.6 30.2 1.0 O A:CYS131 2.7 29.7 1.0 O A:LEU130 2.8 30.2 1.0 HA A:CYS131 3.1 36.3 1.0 C A:CYS131 3.3 31.7 1.0 CA A:CYS131 3.7 30.3 1.0 C A:THR133 3.8 31.4 1.0 H A:THR133 3.8 35.4 1.0 C A:LEU130 3.9 31.2 1.0 N A:THR133 4.0 29.5 1.0 HB A:THR133 4.2 36.2 1.0 HA A:SER135 4.3 37.1 1.0 N A:CYS131 4.3 30.3 1.0 N A:ASN132 4.4 29.9 1.0 CA A:THR133 4.4 28.6 1.0 C A:ASN132 4.4 32.2 1.0 O A:HOH628 4.7 36.5 1.0 C A:SER134 4.7 33.9 1.0 N A:SER135 4.8 31.6 1.0 CB A:THR133 4.8 30.2 1.0 N A:SER134 4.9 27.9 1.0 CA A:ASN132 4.9 30.0 1.0 O A:SER134 4.9 31.4 1.0 H A:ASN132 5.0 35.8 1.0 O A:ASN132 5.0 29.4 1.0 CA A:SER135 5.0 30.9 1.0 CB A:CYS131 5.0 32.3 1.0 HB3 A:CYS131 5.0 38.7 1.0

Potassium binding site 2 out of 3 in the Crystal Structure of E. Coli Guanosine Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of E. Coli Guanosine Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:K505 b:28.0 occ:1.00 O A:LEU227 2.4 28.6 1.0 O A:HOH772 2.4 33.8 1.0 O A:HOH608 2.4 37.8 1.0 O A:HOH661 2.5 27.7 1.0 OE2 A:GLU257 2.5 30.6 1.0 O A:HOH776 2.6 37.1 1.0 OE1 A:GLU257 2.7 28.3 1.0 CD A:GLU257 2.9 32.3 1.0 C A:LEU227 3.6 27.8 1.0 HA2 A:GLY228 3.6 34.1 1.0 H A:THR229 3.8 35.9 1.0 HA A:MET253 4.0 33.9 1.0 H A:ASN254 4.1 34.5 1.0 OG1 A:THR226 4.2 33.3 1.0 HG1 A:THR226 4.2 40.0 1.0 HB2 A:LEU227 4.3 32.5 1.0 O1B A:ADP501 4.4 36.6 1.0 H A:LEU227 4.4 33.5 1.0 CA A:GLY228 4.4 28.4 1.0 O A:HOH757 4.4 42.4 1.0 N A:GLY228 4.4 30.1 1.0 CG A:GLU257 4.4 29.8 1.0 OD1 A:ASP358 4.4 37.0 1.0 O A:HOH639 4.5 31.2 1.0 N A:LEU227 4.6 27.9 1.0 CA A:LEU227 4.6 28.0 1.0 O A:HOH624 4.6 34.5 1.0 O A:HOH638 4.6 33.3 1.0 N A:THR229 4.6 29.9 1.0 O A:HOH742 4.6 50.7 1.0 O A:HOH660 4.7 30.8 1.0 N A:ASN254 4.7 28.8 1.0 HG2 A:GLU257 4.7 35.8 1.0 ND2 A:ASN254 4.8 36.6 1.0 HD22 A:ASN254 4.8 43.9 1.0 HD21 A:ASN254 4.8 43.9 1.0 HG3 A:GLU257 4.9 35.8 1.0 CA A:MET253 4.9 28.2 1.0 HB3 A:ASN254 4.9 34.1 1.0 CB A:LEU227 5.0 27.1 1.0 O A:HOH795 5.0 43.1 1.0

Potassium binding site 3 out of 3 in the Crystal Structure of E. Coli Guanosine Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of E. Coli Guanosine Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:K506 b:33.6 occ:1.00 O A:VAL408 2.7 29.4 1.0 O A:GLN411 2.7 33.8 1.0 O A:ASN354 2.8 32.7 1.0 O A:ASN352 2.8 33.8 1.0 O A:SER413 3.0 28.8 1.0 HB3 A:ASN352 3.1 48.0 1.0 O A:HIS412 3.3 36.6 1.0 HG13 A:VAL408 3.3 35.0 1.0 HG12 A:VAL408 3.4 35.0 1.0 C A:SER413 3.6 28.1 1.0 C A:HIS412 3.6 36.1 1.0 HB3 A:ASN354 3.7 45.1 1.0 OD1 A:ASN352 3.7 40.4 1.0 HG3 A:GLN411 3.7 42.6 1.0 C A:ASN352 3.7 35.2 1.0 HA A:PRO414 3.7 32.6 1.0 CG1 A:VAL408 3.8 29.2 1.0 C A:GLN411 3.8 38.3 1.0 H A:ASN354 3.8 38.8 1.0 C A:VAL408 3.8 28.1 1.0 CB A:ASN352 3.9 40.0 1.0 C A:ASN354 3.9 36.5 1.0 N A:ASN354 3.9 32.3 1.0 HA A:HIS412 4.0 47.5 1.0 HA A:LEU409 4.0 36.4 1.0 N A:SER413 4.1 33.4 1.0 H A:GLN411 4.1 36.1 1.0 CG A:ASN352 4.1 45.8 1.0 N A:PRO414 4.2 28.9 1.0 CA A:HIS412 4.3 39.6 1.0 CA A:ASN354 4.3 37.6 1.0 C A:THR353 4.4 39.4 1.0 CA A:ASN352 4.4 40.5 1.0 HG11 A:VAL408 4.4 35.0 1.0 CA A:SER413 4.4 37.0 1.0 CA A:PRO414 4.4 27.2 1.0 CB A:ASN354 4.5 37.6 1.0 N A:HIS412 4.5 32.5 1.0 HG2 A:GLN411 4.5 42.6 1.0 CG A:GLN411 4.5 35.5 1.0 HA A:VAL408 4.6 30.5 1.0 H A:SER413 4.6 40.0 1.0 HB2 A:ASN352 4.6 48.0 1.0 N A:THR353 4.6 37.7 1.0 H A:ASN352 4.7 42.5 1.0 CA A:VAL408 4.7 25.4 1.0 N A:LEU409 4.7 29.6 1.0 CA A:LEU409 4.7 30.4 1.0 HE21 A:GLN411 4.7 45.5 1.0 HA A:SER413 4.8 44.4 1.0 N A:GLN411 4.8 30.1 1.0 HA A:THR353 4.8 48.2 1.0 O A:THR353 4.8 36.4 1.0 CB A:VAL408 4.8 25.7 1.0 CA A:GLN411 4.9 34.9 1.0 CA A:THR353 4.9 40.2 1.0 N A:ASN352 4.9 35.4 1.0 O A:HOH647 4.9 43.1 1.0 HB2 A:ASN354 4.9 45.1 1.0 C A:LEU409 4.9 31.2 1.0 HB3 A:PRO414 5.0 34.1 1.0

B.Wang, R.A.Grant, M.T.Laub. Ppgpp Coordinates Nucleotide and Amino-Acid Synthesis in E. Coli During Starvation. Mol.Cell V. 80 29 2020.
ISSN: ISSN 1097-2765
PubMed: 32857952
DOI: 10.1016/J.MOLCEL.2020.08.005