Potassium in PDB 8g6y: Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe

The structure of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe also contains other interesting chemical elements:

Zinc	(Zn)	2 atoms
Magnesium	(Mg)	231 atoms

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>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Potassium atom in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe (pdb code 8g6y). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 15 binding sites of Potassium where determined in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe, PDB code: 8g6y:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6203 b:13.5 occ:1.00 O2' a:A793 2.8 7.2 1.0 OP2 a:A794 2.9 2.8 1.0 O a:HOH8499 3.1 4.9 1.0 O3' a:G775 3.2 3.0 1.0 N7 a:G776 3.2 6.6 1.0 OP2 a:G776 3.2 6.6 1.0 O2' a:G775 3.3 3.0 1.0 O a:HOH8360 3.7 7.4 1.0 C8 a:G776 3.7 6.6 1.0 O3' a:A793 3.9 7.2 1.0 P a:G776 3.9 6.6 1.0 C2' a:A793 4.0 7.2 1.0 P a:A794 4.0 2.8 1.0 O a:HOH8365 4.1 3.1 1.0 C2' a:G775 4.2 3.0 1.0 C3' a:G775 4.3 3.0 1.0 C1' a:A793 4.4 7.2 1.0 N3 a:G775 4.4 3.0 1.0 C1' a:G775 4.5 3.0 1.0 C5 a:G776 4.5 6.6 1.0 C3' a:A793 4.5 7.2 1.0 O5' a:G776 4.7 6.6 1.0 O a:HOH8567 4.8 4.2 1.0 O5' a:A794 4.9 2.8 1.0

Potassium binding site 2 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6204 b:14.0 occ:1.00 O6 a:G950 2.7 4.4 1.0 O6 a:G966 2.8 3.4 1.0 O a:HOH9181 2.8 9.1 1.0 O a:HOH8878 2.9 7.6 1.0 O4 a:U967 3.0 2.9 1.0 O a:HOH9309 3.2 8.5 1.0 O6 a:G949 3.2 2.8 1.0 N4 a:C951 3.4 11.2 1.0 C4 a:U967 3.8 2.9 1.0 C6 a:G950 3.8 4.4 1.0 N3 a:U967 3.8 2.9 1.0 C6 a:G966 3.8 3.4 1.0 O a:HOH7160 3.9 11.2 1.0 O a:HOH8694 4.0 6.3 1.0 C6 a:G949 4.1 2.8 1.0 N4 a:C968 4.2 3.0 1.0 N7 a:G950 4.4 4.4 1.0 C5 a:G950 4.4 4.4 1.0 C4 a:C951 4.4 11.2 1.0 N1 a:G966 4.6 3.4 1.0 C5 a:G966 4.7 3.4 1.0 C5 a:G949 4.8 2.8 1.0 N1 a:G949 4.8 2.8 1.0 N4 a:C965 4.9 4.7 1.0 O a:HOH8968 4.9 6.6 1.0 N3 a:C951 4.9 11.2 1.0 N1 a:G950 4.9 4.4 1.0 N7 a:G949 5.0 2.8 1.0

Potassium binding site 3 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6205 b:16.9 occ:1.00 O6 a:G659 2.8 4.4 1.0 O a:HOH8302 2.8 2.9 1.0 O4 a:U598 2.9 11.2 1.0 O6 a:G597 3.0 6.5 1.0 O4 a:U658 3.3 3.9 1.0 N6 a:A599 3.6 5.4 1.0 C4 a:U598 3.9 11.2 1.0 C6 a:G659 3.9 4.4 1.0 C6 a:G597 4.0 6.5 1.0 N3 a:U598 4.0 11.2 1.0 N4 a:C660 4.1 3.6 1.0 C4 a:U658 4.3 3.9 1.0 N7 a:G659 4.3 4.4 1.0 C5 a:G659 4.5 4.4 1.0 C6 a:A599 4.5 5.4 1.0 C5 a:G597 4.8 6.5 1.0 N7 a:G597 4.8 6.5 1.0 O4 a:U596 4.9 6.2 1.0 N1 a:G597 5.0 6.5 1.0

Potassium binding site 4 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6206 b:6.2 occ:1.00 O6 a:G649 2.7 4.6 1.0 O4 a:U639 2.8 4.3 1.0 O6 a:G648 3.0 6.4 1.0 O6 a:G638 3.0 5.5 1.0 O a:HOH7582 3.1 3.3 1.0 C4 a:U639 3.7 4.3 1.0 C6 a:G648 3.7 6.4 1.0 C6 a:G649 3.8 4.6 1.0 N3 a:U639 3.8 4.3 1.0 N4 a:C650 3.9 4.6 1.0 C6 a:G638 3.9 5.5 1.0 N7 a:G649 4.2 4.6 1.0 N4 a:C640 4.2 4.5 1.0 C5 a:G649 4.3 4.6 1.0 C5 a:G648 4.5 6.4 1.0 N1 a:G648 4.5 6.4 1.0 N7 a:G648 4.7 6.4 1.0 N1 a:G638 4.7 5.5 1.0 C5 a:G638 4.7 5.5 1.0 C4 a:C650 4.8 4.6 1.0 N7 a:G638 4.9 5.5 1.0 N1 a:G649 4.9 4.6 1.0 C4 a:C640 5.0 4.5 1.0

Potassium binding site 5 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6207 b:11.2 occ:1.00 O4' a:C2501 2.6 17.7 1.0 O6 a:G2061 2.7 22.7 1.0 O6 a:G2447 2.8 13.2 1.0 N7 a:G2061 2.9 15.4 1.0 N7 a:G2447 2.9 12.2 1.0 O2 a:C2501 3.1 15.1 1.0 O2 a:PSU2504 3.3 17.9 1.0 C6 a:G2061 3.4 14.7 1.0 C1' a:C2501 3.4 11.6 1.0 C6 a:G2447 3.4 3.4 1.0 C5 a:G2061 3.4 12.3 1.0 C5 a:G2447 3.4 10.2 1.0 C4' a:C2501 3.6 13.4 1.0 C2 a:C2501 3.6 11.3 1.0 N1 a:C2501 3.8 11.5 1.0 C5' a:C2501 4.0 12.6 1.0 C8 a:G2061 4.0 12.6 1.0 C8 a:G2447 4.1 11.2 1.0 N6 a:A2451 4.1 14.6 1.0 C2 a:PSU2504 4.1 17.8 1.0 N1 a:PSU2504 4.1 14.7 1.0 N3 a:C2501 4.6 10.0 1.0 O5' a:C2501 4.7 17.0 1.0 C4 a:G2447 4.7 10.5 1.0 N1 a:G2447 4.7 14.1 1.0 N1 a:G2061 4.7 11.2 1.0 C4 a:G2061 4.7 16.1 1.0 C2' a:C2501 4.8 12.9 1.0 C2' a:U2500 4.8 13.2 1.0 C3' a:C2501 4.8 13.1 1.0 C6 a:C2501 4.9 10.4 1.0

Potassium binding site 6 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6208 b:10.8 occ:1.00 O a:HOH9130 2.9 5.0 1.0 O a:HOH6771 3.0 3.5 1.0 O3' a:A575 3.0 3.1 1.0 OP1 a:C2501 3.0 16.6 1.0 OP1 a:PSU2504 3.1 16.3 1.0 OP1 a:U576 3.1 4.3 1.0 OP1 a:2MA2503 3.2 17.9 1.0 O5' a:2MA2503 3.3 19.9 1.0 O3' a:U2500 3.3 11.7 1.0 P a:U576 3.7 4.3 1.0 MG a:MG6078 3.7 4.9 1.0 P a:C2501 3.8 16.6 1.0 P a:2MA2503 3.9 16.4 1.0 P a:PSU2504 4.1 25.0 1.0 O a:HOH6568 4.1 3.7 1.0 C3' a:A575 4.2 3.1 1.0 OP2 a:PSU2504 4.2 18.1 1.0 O2' a:A575 4.2 3.1 1.0 C4' a:A575 4.3 3.1 1.0 O2' a:U2500 4.3 21.1 1.0 C5' a:U576 4.4 4.3 1.0 O a:HOH8707 4.5 3.7 1.0 C5' a:2MA2503 4.5 12.0 1.0 C3' a:U2500 4.6 11.4 1.0 O5' a:U576 4.6 4.3 1.0 C5' a:C2501 4.6 12.6 1.0 C4' a:2MA2503 4.7 11.8 1.0 O5' a:C2501 4.8 17.0 1.0 C2' a:A575 4.8 3.1 1.0 C4' a:U2500 4.9 12.5 1.0 OP2 a:U576 4.9 4.3 1.0 C5' a:A575 4.9 3.1 1.0 OP2 a:2MA2503 5.0 16.5 1.0

Potassium binding site 7 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6209 b:11.2 occ:1.00 O2 a:U2022 2.8 3.9 1.0 O a:HOH8706 2.8 2.8 1.0 O a:HOH6899 2.8 6.2 1.0 O2 a:C2616 2.9 4.5 1.0 O2' a:C2616 3.0 4.5 1.0 O a:HOH8883 3.1 3.4 1.0 C2' a:C2616 3.5 4.5 1.0 O4' a:U2617 3.7 5.7 1.0 C1' a:C2616 3.8 4.5 1.0 N2 a:G2053 3.8 11.2 1.0 C2 a:U2022 3.9 3.9 1.0 C4 a:U2034 4.0 4.7 1.0 C2 a:C2616 4.0 4.5 1.0 C5 a:U2034 4.0 4.7 1.0 O4 a:U2034 4.1 4.7 1.0 O z:HOH217 4.3 4.3 1.0 O a:HOH7136 4.4 3.1 1.0 N3 a:U2034 4.4 4.7 1.0 N1 a:C2616 4.5 4.5 1.0 C1' a:U2617 4.5 5.7 1.0 N3 a:A2054 4.5 11.2 1.0 C6 a:U2034 4.5 4.7 1.0 C4' a:U2617 4.7 5.7 1.0 N3 a:U2022 4.7 3.9 1.0 C1' a:U2022 4.7 3.9 1.0 N1 a:U2022 4.8 3.9 1.0 O2' a:U2022 4.9 3.9 1.0 C2 a:U2034 4.9 4.7 1.0 N1 a:U2034 5.0 4.7 1.0 O2' a:A2054 5.0 11.2 1.0

Potassium binding site 8 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6210 b:6.5 occ:1.00 N1 a:A2614 2.8 4.5 1.0 N7 a:G2053 2.9 11.2 1.0 O a:HOH6407 2.9 9.6 1.0 O2' a:A2051 2.9 11.2 1.0 N3 a:A2051 3.3 11.2 1.0 O6 a:G2053 3.4 11.2 1.0 N6 a:A2052 3.5 9.7 1.0 C2 a:A2614 3.6 4.5 1.0 N7 a:A2052 3.6 9.7 1.0 C6 a:A2052 3.7 9.7 1.0 C5 a:A2052 3.7 9.7 1.0 N6 a:A2577 3.7 11.2 1.0 C5 a:G2053 3.7 11.2 1.0 C6 a:A2614 3.7 4.5 1.0 N6 a:A2614 3.8 4.5 1.0 C6 a:A2577 3.9 11.2 1.0 C6 a:G2053 3.9 11.2 1.0 C8 a:G2053 3.9 11.2 1.0 C2 a:A2051 4.0 11.2 1.0 C2' a:A2051 4.1 11.2 1.0 C4 a:A2051 4.2 11.2 1.0 C5 a:A2577 4.2 11.2 1.0 C1' a:A2051 4.2 11.2 1.0 C8 a:A2052 4.4 9.7 1.0 N1 a:A2577 4.4 11.2 1.0 N7 a:A2577 4.4 11.2 1.0 N9 a:A2051 4.5 11.2 1.0 N1 a:A2052 4.5 9.7 1.0 C4 a:A2052 4.6 9.7 1.0 O3' a:A2051 4.8 11.2 1.0 N3 a:A2614 4.8 4.5 1.0 O a:HOH7599 4.9 8.5 1.0 C4 a:A2577 4.9 11.2 1.0 N9 a:A2052 4.9 9.7 1.0 O a:HOH6596 5.0 6.0 1.0 C4 a:G2053 5.0 11.2 1.0 OP2 a:G2053 5.0 11.2 1.0 C5 a:A2614 5.0 4.5 1.0

Potassium binding site 9 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6211 b:9.3 occ:1.00 O2' a:G2250 2.7 16.6 1.0 OP2 a:OMG2251 2.8 6.0 1.0 N7 a:A2497 2.9 4.2 1.0 OP2 a:A2497 2.9 4.2 1.0 O a:HOH7107 3.1 4.1 1.0 OP2 a:C2496 3.3 3.8 1.0 C8 a:A2497 3.3 4.2 1.0 O3' a:G2250 3.5 14.2 1.0 O5' a:C2496 3.6 3.8 1.0 O a:HOH7063 3.7 3.2 1.0 P a:OMG2251 3.8 6.0 1.0 P a:C2496 3.8 3.8 1.0 C2' a:G2250 3.9 13.0 1.0 C5 a:A2497 4.2 4.2 1.0 OP1 a:C2496 4.2 3.8 1.0 C3' a:G2250 4.2 15.2 1.0 O a:HOH8561 4.3 4.2 1.0 P a:A2497 4.3 4.2 1.0 C3' a:C2496 4.5 3.8 1.0 C1' a:G2250 4.5 11.6 1.0 OP1 a:OMG2251 4.5 6.0 1.0 C5' a:C2496 4.6 3.8 1.0 NH2 l:4D481 4.6 7.4 1.0 N9 a:A2497 4.7 4.2 1.0 N6 a:A2497 4.8 4.2 1.0 O5' a:A2497 4.8 4.2 1.0 O3' a:C2496 4.8 3.8 1.0 CZ l:4D481 4.9 7.4 1.0 C6 a:A2497 4.9 4.2 1.0 CD l:4D481 5.0 7.4 1.0

Potassium binding site 10 out of 15 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe within 5.0Å range: probe atom residue distance (Å) B Occ a:K6212 b:31.2 occ:1.00 OP2 a:C2261 2.8 3.6 1.0 OP2 a:C2260 2.9 3.1 1.0 O5' a:C2260 3.3 3.1 1.0 O v:ASP15 3.5 11.2 1.0 P a:C2260 3.6 3.1 1.0 O v:HOH101 3.8 11.2 1.0 CA v:SER16 3.9 11.2 1.0 N v:GLU17 4.0 8.2 1.0 O a:HOH7657 4.1 3.5 1.0 C3' a:C2260 4.1 3.1 1.0 OP1 a:C2260 4.1 3.1 1.0 P a:C2261 4.2 3.6 1.0 C6 a:C2260 4.3 3.1 1.0 C v:SER16 4.4 11.2 1.0 C5' a:C2260 4.4 3.1 1.0 C v:ASP15 4.4 11.2 1.0 C5 a:C2260 4.5 3.1 1.0 O3' a:C2260 4.5 3.1 1.0 N v:SER16 4.7 11.2 1.0 C5 a:C2261 4.7 3.6 1.0 C4' a:C2260 4.8 3.1 1.0 CB v:SER16 4.8 11.2 1.0 N1 a:C2260 4.8 3.1 1.0 CB v:GLU17 4.9 8.2 1.0 CA v:GLU17 4.9 8.2 1.0 O5' a:C2261 5.0 3.6 1.0

C.Majumdar, J.H.D.Cate. Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site 3-Aminopyridine-4-Carboxylic Acid Charged Nh-Trnaphe To Be Published.