Potassium in PDB 6cao: Structure of the Ribosomal Decoding Complex at Ambient Temperature

The structure of Structure of the Ribosomal Decoding Complex at Ambient Temperature, PDB code: 6cao was solved by H.Demirci, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.22 / 3.45
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	402.300, 402.300, 176.400, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 27.2

The structure of Structure of the Ribosomal Decoding Complex at Ambient Temperature also contains other interesting chemical elements:

Magnesium	(Mg)	303 atoms
Zinc	(Zn)	2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 37;

Binding sites:

The binding sites of Potassium atom in the Structure of the Ribosomal Decoding Complex at Ambient Temperature (pdb code 6cao). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 37 binding sites of Potassium where determined in the Structure of the Ribosomal Decoding Complex at Ambient Temperature, PDB code: 6cao:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1607 b:0.0 occ:1.00 O4 A:U229 3.5 63.6 1.0 O4 A:U133 3.5 72.7 1.0 MG A:MG1908 4.3 87.6 1.0 N7 A:A228 4.4 60.9 1.0 C4 A:U133 4.6 71.4 1.0 C4 A:U229 4.6 58.6 1.0 OP2 A:A228 4.7 80.3 1.0 OP2 A:G227 4.7 84.6 1.0 N3 A:U133 4.9 71.3 1.0

Potassium binding site 2 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range:

Potassium binding site 3 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1609 b:99.5 occ:1.00 K A:K1631 4.4 0.8 1.0

Potassium binding site 4 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1610 b:0.5 occ:1.00 OP2 A:G577 3.3 54.4 1.0 OP1 A:G576 3.4 69.0 1.0 MG A:MG1840 3.8 27.1 1.0 OP2 A:A815 4.1 47.2 1.0 P A:G576 4.4 66.0 1.0 MG A:MG1796 4.4 27.6 1.0 OP1 A:A815 4.4 48.2 1.0 C5' A:G577 4.5 51.9 1.0 OP2 A:G576 4.5 68.5 1.0 OP1 A:G575 4.6 48.7 1.0 P A:G577 4.7 48.9 1.0 O5' A:G576 4.7 61.9 1.0 P A:A815 4.8 44.4 1.0

Potassium binding site 5 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1611 b:0.5 occ:1.00 O6 A:G297 3.2 81.6 1.0 C6 A:G297 4.5 75.9 1.0 O4 A:U296 4.6 46.8 1.0

Potassium binding site 6 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1612 b:96.8 occ:1.00 N7 A:G1089 3.6 93.4 1.0 O6 A:G1089 3.6 0.8 1.0 O4 A:U1090 3.8 80.0 1.0 N7 A:G1088 3.8 79.4 1.0 O6 A:G1088 4.1 98.0 1.0 MG A:MG1799 4.2 46.9 1.0 C5 A:G1089 4.3 94.4 1.0 C6 A:G1089 4.3 97.8 1.0 C5 A:G1088 4.5 83.8 1.0 OP2 A:G1088 4.5 81.4 1.0 C4 A:U1090 4.6 83.0 1.0 C6 A:G1088 4.6 92.3 1.0 N7 A:G1087 4.7 87.3 1.0 C8 A:G1089 4.7 94.1 1.0 C8 A:G1088 4.7 78.1 1.0

Potassium binding site 7 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1613 b:0.1 occ:1.00 O6 A:G838 3.7 0.8 1.0 N7 A:G837 3.7 83.6 1.0 O2 A:C840 3.9 0.3 1.0 O6 A:G837 4.0 67.7 1.0 N3 A:C840 4.1 0.6 1.0 N7 A:G838 4.2 0.1 1.0 C2 A:C840 4.3 0.1 1.0 C5 A:G837 4.4 82.0 1.0 C6 A:G837 4.5 77.5 1.0 C6 A:G838 4.5 0.0 1.0 C8 A:G837 4.7 81.8 1.0 C5 A:G838 4.7 0.6 1.0

Potassium binding site 8 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1614 b:92.1 occ:1.00 O4 A:U14 3.7 71.6 1.0 OP2 A:U17 4.2 65.5 1.0 C4 A:U14 4.5 64.2 1.0 OP1 A:U17 4.7 60.6 1.0 N3 A:U14 4.9 62.2 1.0 P A:U17 5.0 67.5 1.0

Potassium binding site 9 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1615 b:77.8 occ:1.00 OP2 A:C536 3.1 61.5 1.0 MG A:MG1775 3.5 70.5 1.0 N7 A:G537 3.6 81.5 1.0 O6 A:G538 4.2 95.4 1.0 O6 A:G537 4.2 76.8 1.0 C5 A:G537 4.3 81.9 1.0 N7 A:G538 4.4 99.1 1.0 P A:C536 4.4 65.8 1.0 OP1 A:A535 4.4 68.7 1.0 C5 A:C536 4.5 63.4 1.0 C8 A:G537 4.5 79.0 1.0 O5' A:C536 4.5 64.9 1.0 C6 A:G537 4.5 80.1 1.0 C6 A:C536 4.9 62.7 1.0 C4 A:C536 4.9 64.5 1.0 C6 A:G538 5.0 95.7 1.0

Potassium binding site 10 out of 37 in the Structure of the Ribosomal Decoding Complex at Ambient Temperature


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Structure of the Ribosomal Decoding Complex at Ambient Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:K1616 b:0.8 occ:1.00 O A:HOH2133 3.2 0.9 1.0 O6 A:G438 3.7 0.0 1.0 OP2 A:A496 3.8 0.6 1.0 OP1 A:A496 4.3 99.2 1.0 P A:A496 4.5 99.2 1.0 OP1 A:U495 4.8 0.8 1.0 C6 A:G438 4.8 0.0 1.0 MG A:MG1735 5.0 0.3 1.0

E.H.Dao, F.Poitevin, R.G.Sierra, C.Gati, Y.Rao, H.I.Ciftci, F.Aksit, A.Mcgurk, T.Obrinski, P.Mgbam, B.Hayes, C.De Lichtenberg, F.Pardo-Avila, N.Corsepius, L.Zhang, M.H.Seaberg, M.S.Hunter, M.Liang, J.E.Koglin, S.Wakatsuki, H.Demirci. Structure of the 30S Ribosomal Decoding Complex at Ambient Temperature. Rna V. 24 1667 2018.
ISSN: ESSN 1469-9001
PubMed: 30139800
DOI: 10.1261/RNA.067660.118