Potassium in PDB 8qrm: Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3

The structure of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Zinc	(Zn)	1 atom
Magnesium	(Mg)	59 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 17;

Binding sites:

The binding sites of Potassium atom in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 (pdb code 8qrm). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 17 binding sites of Potassium where determined in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3, PDB code: 8qrm:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1760 b:125.7 occ:1.00 O2 A:C702 2.8 84.5 1.0 O2' A:C842 2.8 82.5 1.0 N3 A:C707 3.1 106.4 1.0 N4 A:C707 3.2 103.4 1.0 O3' A:C842 3.4 89.3 1.0 C4 A:C707 3.6 106.9 1.0 O2 A:C708 3.7 92.9 1.0 C5' A:G843 3.8 74.7 1.0 C2 A:C708 3.9 92.1 1.0 C2' A:C842 3.9 69.0 1.0 C2 A:C702 3.9 78.3 1.0 N3 A:C708 4.0 92.3 1.0 C3' A:C842 4.0 77.9 1.0 C2 A:C707 4.2 102.1 1.0 C4' A:C842 4.3 74.5 1.0 O2 A:C707 4.4 100.7 1.0 N3 A:C702 4.4 79.8 1.0 P A:G843 4.5 87.6 1.0 OP1 A:G843 4.6 80.4 1.0 O5' A:G843 4.6 70.4 1.0 N1 A:C708 4.7 93.4 1.0 C4 A:C708 4.8 93.6 1.0 C4' A:G843 4.9 79.2 1.0 N4 A:C706 4.9 109.2 1.0 C1' A:C842 4.9 69.8 1.0 O4' A:A703 5.0 81.3 1.0

Potassium binding site 2 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1761 b:132.8 occ:1.00 O2' A:G717 2.7 90.3 1.0 O6 A:G719 2.8 95.5 1.0 O4' A:G791 2.8 90.8 1.0 N7 A:G719 2.9 93.5 1.0 OP2 A:A718 3.0 92.1 1.0 O5' A:G791 3.3 85.3 1.0 C6 A:G719 3.4 95.7 1.0 C5 A:G719 3.5 93.5 1.0 O3' A:G717 3.7 86.9 1.0 C1' A:G791 3.7 86.5 1.0 N7 A:A718 3.7 89.8 1.0 C4' A:G791 3.8 90.9 1.0 C2' A:G717 3.8 90.4 1.0 P A:A718 4.0 95.7 1.0 C5' A:G791 4.1 87.0 1.0 N3 A:G717 4.1 86.6 1.0 C8 A:G719 4.1 94.6 1.0 C8 A:G791 4.1 95.6 1.0 C1' A:G717 4.2 89.1 1.0 O4 A:U720 4.2 106.5 1.0 N9 A:G791 4.2 90.8 1.0 OP2 A:G791 4.3 96.1 1.0 C8 A:A718 4.3 89.7 1.0 C3' A:G717 4.4 88.3 1.0 P A:G791 4.4 98.1 1.0 MG A:MG1704 4.4 104.9 1.0 C5 A:A718 4.5 89.8 1.0 C4 A:U720 4.5 102.8 1.0 N6 A:A718 4.7 88.1 1.0 O5' A:A718 4.8 99.3 1.0 N1 A:G719 4.8 93.8 1.0 C4 A:G719 4.8 89.5 1.0 C4 A:G717 4.9 89.0 1.0 N9 A:G717 4.9 92.2 1.0 N2 A:G717 4.9 83.8 1.0 C2 A:G717 4.9 84.6 1.0 C6 A:A718 5.0 89.2 1.0 C5 A:U720 5.0 103.6 1.0 OP2 A:G719 5.0 103.0 1.0 C2' A:G791 5.0 85.0 1.0

Potassium binding site 3 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1762 b:135.2 occ:1.00 OD1 J:ASN74 2.8 107.6 1.0 O6 A:G901 3.1 72.9 1.0 N7 A:G901 3.3 68.5 1.0 N3 A:C890 3.5 88.6 1.0 O J:PRO73 3.6 104.0 1.0 C6 A:G901 3.8 67.5 1.0 C5 A:G901 3.9 66.4 1.0 CG J:ASN74 4.0 106.7 1.0 C5 A:C900 4.0 56.1 1.0 O2 A:C890 4.0 85.3 1.0 C2 A:C890 4.1 88.7 1.0 C J:PRO73 4.2 102.0 1.0 CA J:ASN74 4.2 106.6 1.0 C4 A:C890 4.3 88.5 1.0 N4 A:C890 4.4 88.4 1.0 N4 A:C900 4.4 66.4 1.0 C8 A:G901 4.4 68.0 1.0 N J:ASN74 4.4 107.1 1.0 C4 A:C900 4.5 64.5 1.0 CB J:ASN74 4.7 103.3 1.0 C6 A:C900 4.8 50.8 1.0 CB J:PRO73 4.8 101.3 1.0 CG J:PRO73 4.8 102.5 1.0 ND2 J:ASN74 4.9 108.7 1.0

Potassium binding site 4 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1763 b:111.1 occ:1.00 O2' A:C1105 2.8 69.6 1.0 O2 A:C1105 2.9 78.5 1.0 OP2 A:U1107 3.0 76.2 1.0 O3' A:U1592 3.2 66.5 1.0 O3' A:C1105 3.3 79.2 1.0 C1' A:C1105 3.4 70.1 1.0 C5' A:U1593 3.5 76.5 1.0 C2' A:C1105 3.5 67.2 1.0 O2' A:U1592 3.8 70.4 1.0 OP1 A:U1593 3.9 82.3 1.0 C5' A:C1106 3.9 84.3 1.0 C2 A:C1105 4.0 72.0 1.0 C3' A:C1105 4.0 69.0 1.0 P A:U1593 4.0 82.5 1.0 O5' A:U1593 4.2 78.7 1.0 N2 A:G1594 4.2 83.5 1.0 N1 A:C1105 4.2 70.8 1.0 C3' A:U1592 4.2 59.7 1.0 C5' A:U1107 4.3 71.6 1.0 P A:U1107 4.3 86.0 1.0 C3' A:C1106 4.4 80.9 1.0 P A:C1106 4.4 100.4 1.0 O4' A:C1105 4.4 71.8 1.0 OP2 A:C1106 4.4 88.8 1.0 C4' A:U1592 4.5 59.2 1.0 C4' A:C1106 4.6 85.1 1.0 O5' A:C1106 4.6 87.8 1.0 C2' A:U1592 4.6 62.3 1.0 C4' A:C1105 4.7 65.9 1.0 O5' A:U1107 4.7 77.0 1.0 C4' A:U1593 4.8 75.1 1.0 C4' A:U1107 4.8 77.6 1.0 O3' A:C1106 4.8 83.9 1.0 O4' A:U1107 4.9 71.0 1.0

Potassium binding site 5 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1764 b:379.0 occ:1.00 O6 A:G1200 1.9 373.7 1.0 N7 A:G1200 2.2 374.1 1.0 C6 A:G1200 2.4 373.7 1.0 C5 A:G1200 2.5 373.8 1.0 OP2 A:G1199 2.7 370.0 1.0 N7 A:G1421 3.5 365.8 1.0 C8 A:G1200 3.5 374.0 1.0 C5 A:G1421 3.6 366.2 1.0 N7 A:G1199 3.7 368.7 1.0 N1 A:G1200 3.8 373.4 1.0 C4 A:G1200 3.9 373.5 1.0 C6 A:G1421 3.9 365.8 1.0 C8 A:G1421 3.9 366.2 1.0 OP2 A:A1198 4.0 339.9 1.0 P A:G1199 4.1 370.8 1.0 C8 A:G1199 4.1 369.3 1.0 O5' A:A1198 4.1 341.1 1.0 O6 A:G1421 4.1 365.6 1.0 C4 A:G1421 4.1 366.4 1.0 OP1 A:A1198 4.3 340.3 1.0 P A:A1198 4.3 338.5 1.0 N9 A:G1200 4.3 373.8 1.0 N9 A:G1421 4.3 366.7 1.0 OP1 A:G1199 4.5 369.3 1.0 N6 A:A1365 4.6 359.0 1.0 N1 A:G1421 4.7 365.5 1.0 C2 A:G1200 4.8 373.3 1.0 N3 A:G1200 4.9 373.2 1.0 C5 A:G1199 4.9 368.9 1.0 C3' A:A1198 4.9 343.4 1.0 N3 A:G1421 4.9 365.8 1.0

Potassium binding site 6 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1765 b:301.6 occ:1.00 O6 A:G1362 2.5 316.5 1.0 N7 A:G1362 2.9 315.0 1.0 C6 A:G1362 3.2 316.0 1.0 OP1 A:G1199 3.2 369.3 1.0 C5 A:G1362 3.3 315.3 1.0 N7 A:G1361 3.8 315.2 1.0 O6 A:G1361 3.8 314.3 1.0 C8 A:G1362 4.1 314.9 1.0 C5 A:G1361 4.1 314.9 1.0 C6 A:G1361 4.1 314.5 1.0 P A:G1199 4.2 370.8 1.0 O3' A:A1198 4.2 343.8 1.0 O5' A:G1199 4.3 370.2 1.0 N1 A:G1362 4.5 316.4 1.0 C8 A:G1361 4.7 315.9 1.0 C4 A:G1362 4.7 315.2 1.0 C5' A:G1199 4.7 369.9 1.0 K A:K1766 4.8 302.6 1.0 N4 A:C1363 4.9 321.4 1.0

Potassium binding site 7 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1766 b:302.6 occ:1.00 OP2 A:A1201 3.2 371.3 1.0 OP2 A:G1200 3.2 374.2 1.0 N7 A:A1201 3.4 371.4 1.0 C8 A:A1201 3.8 371.5 1.0 OP1 A:G1199 4.0 369.3 1.0 OP1 A:G1200 4.2 373.4 1.0 P A:G1200 4.2 374.1 1.0 N7 A:G1202 4.2 360.2 1.0 C5 A:A1201 4.4 371.0 1.0 P A:A1201 4.5 372.0 1.0 O6 A:G1202 4.7 359.2 1.0 O5' A:G1199 4.7 370.2 1.0 O5' A:A1201 4.8 371.6 1.0 K A:K1765 4.8 301.6 1.0 N9 A:A1201 4.9 371.5 1.0 P A:G1199 4.9 370.8 1.0 N6 A:A1201 4.9 370.4 1.0 O6 A:G1362 4.9 316.5 1.0 O5' A:G1200 5.0 374.4 1.0

Potassium binding site 8 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1767 b:327.6 occ:1.00 O4 A:U1257 2.5 302.7 1.0 N6 A:A1256 2.9 302.5 1.0 C4 A:U1257 3.6 302.8 1.0 O6 A:G1336 3.6 309.1 1.0 O2 A:C1330 3.7 289.0 1.0 O4 A:U1337 3.9 311.8 1.0 O2' A:C1330 4.0 287.9 1.0 O4 A:U1335 4.0 295.9 1.0 C6 A:A1256 4.0 302.6 1.0 C2 A:C1330 4.2 289.1 1.0 N3 A:U1257 4.3 302.6 1.0 N7 A:A1256 4.4 301.7 1.0 C4 A:U1335 4.5 297.1 1.0 N3 A:U1335 4.5 298.4 1.0 C5 A:A1256 4.6 302.4 1.0 C5 A:U1257 4.6 302.7 1.0 O4 A:U1255 4.6 299.2 1.0 C6 A:G1336 4.7 309.6 1.0 N1 A:C1330 4.7 288.6 1.0 N3 A:C1330 4.7 288.6 1.0 C1' A:C1330 4.8 288.6 1.0 C4 A:U1337 4.9 311.9 1.0 C2' A:C1330 5.0 288.1 1.0

Potassium binding site 9 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1768 b:288.7 occ:1.00 O4 A:U1329 1.9 281.9 1.0 O6 A:G1328 2.8 265.2 1.0 C4 A:U1329 3.1 281.5 1.0 C6 A:G1328 3.5 265.1 1.0 O6 A:G1263 3.6 268.1 1.0 N3 A:U1329 4.0 280.9 1.0 N7 A:G1328 4.0 265.2 1.0 C5 A:G1328 4.0 265.0 1.0 C5 A:U1329 4.1 281.0 1.0 N3 A:A1258 4.1 290.2 1.0 C2 A:A1258 4.2 289.9 1.0 OP2 A:C1262 4.3 284.4 1.0 N1 A:G1328 4.6 265.0 1.0 N4 A:C1264 4.6 250.6 1.0 C6 A:G1263 4.8 266.6 1.0 MG A:MG1748 4.8 318.9 1.0

Potassium binding site 10 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1769 b:300.6 occ:1.00 O3' A:C1330 2.5 288.7 1.0 O4' A:C1330 3.2 288.8 1.0 C4' A:C1330 3.2 288.9 1.0 C3' A:C1330 3.4 288.7 1.0 C5' A:A1331 3.5 299.2 1.0 OP2 A:A1331 3.6 298.5 1.0 P A:A1331 3.6 298.0 1.0 C1' A:C1330 3.6 288.6 1.0 O4 A:U1335 3.7 295.9 1.0 O5' A:A1331 4.0 298.9 1.0 O6 A:G1334 4.0 294.0 1.0 OP2 A:G1333 4.0 286.4 1.0 N7 A:G1334 4.1 293.8 1.0 C2' A:C1330 4.1 288.1 1.0 N7 A:G1333 4.4 283.9 1.0 O2' A:C1330 4.6 287.9 1.0 C4 A:U1335 4.6 297.1 1.0 C4' A:A1331 4.6 299.4 1.0 C5' A:C1330 4.7 288.7 1.0 C6 A:G1334 4.8 294.8 1.0 O2 A:C1330 4.8 289.0 1.0 OP1 A:A1332 4.8 280.4 1.0 C5 A:G1334 4.8 294.7 1.0 OP1 A:A1331 4.9 299.1 1.0 N1 A:C1330 4.9 288.6 1.0

M.Cipullo, G.Valentin Gese, S.Gopalakrishna, A.Krueger, V.Lobo, M.A.Pirozhkova, J.Marks, P.Palenkova, D.Shiriaev, Y.Liu, J.Misic, Y.Cai, M.Nguyen, A.Abdelbagi, X.Li, M.Minczuk, M.Hafner, D.Benhalevy, A.A.Sarshad, I.Attanasov, B.M.Hallberg, J.Rorbach. GTPBP8 Plays A Role in Mitoribosome Formation in Human Mitochondria Nat Commun 2024.
ISSN: ESSN 2041-1723