Potassium in PDB 8qrk: Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1

The structure of Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1 also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Magnesium	(Mg)	49 atoms
Zinc	(Zn)	1 atom

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 1 (pdb code 8qrk). 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 1, PDB code: 8qrk:
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 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1749 b:386.4 occ:1.00 N3 A:C707 2.2 238.7 1.0 N4 A:C707 2.3 256.1 1.0 C4 A:C707 2.6 248.1 1.0 O2 A:C702 3.2 296.8 1.0 C2 A:C707 3.5 232.9 1.0 O2' A:C842 3.8 297.8 1.0 O2 A:C707 4.0 226.3 1.0 C5 A:C707 4.0 248.3 1.0 N3 A:C708 4.0 262.5 1.0 C2 A:C708 4.1 262.5 1.0 C2 A:C702 4.1 293.9 1.0 N4 A:C706 4.2 254.0 1.0 O2 A:C708 4.2 262.3 1.0 N3 A:C702 4.3 291.3 1.0 O3' A:C842 4.4 293.9 1.0 C4 A:C708 4.5 263.9 1.0 C5' A:G843 4.5 273.5 1.0 N1 A:C707 4.6 233.8 1.0 N3 A:A703 4.6 282.8 1.0 N1 A:C708 4.7 260.5 1.0 C6 A:C707 4.8 242.2 1.0 C5 A:C706 4.9 251.6 1.0 C4 A:C706 4.9 250.1 1.0 C1' A:A703 5.0 286.0 1.0

Potassium binding site 2 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1750 b:408.1 occ:1.00 N7 A:G719 2.4 357.6 1.0 O6 A:G719 2.8 354.8 1.0 N7 A:A718 2.9 396.9 1.0 O2' A:G717 3.0 408.0 1.0 C5 A:G719 3.0 355.5 1.0 OP2 A:A718 3.2 399.3 1.0 C6 A:G719 3.2 354.1 1.0 O3' A:G717 3.4 404.3 1.0 C8 A:A718 3.5 394.4 1.0 C8 A:G719 3.5 355.6 1.0 C5 A:A718 3.6 395.3 1.0 O4' A:G791 3.6 368.2 1.0 C2' A:G717 3.9 402.7 1.0 P A:A718 3.9 403.8 1.0 C1' A:G717 3.9 400.5 1.0 N3 A:G717 4.0 398.4 1.0 N6 A:A718 4.1 395.2 1.0 O5' A:G791 4.1 374.7 1.0 C6 A:A718 4.1 395.4 1.0 C3' A:G717 4.3 400.9 1.0 C4 A:G719 4.3 353.6 1.0 C1' A:G791 4.4 362.8 1.0 N9 A:A718 4.4 391.7 1.0 O5' A:A718 4.4 398.4 1.0 C4 A:A718 4.5 392.3 1.0 N1 A:G719 4.5 350.9 1.0 N9 A:G719 4.5 352.6 1.0 O4 A:U720 4.7 329.6 1.0 C4' A:G791 4.7 367.5 1.0 C8 A:G791 4.8 364.4 1.0 C4 A:G717 4.8 396.5 1.0 N9 A:G717 4.8 398.2 1.0 OP2 A:G791 4.8 374.6 1.0 N2 A:G717 4.8 392.2 1.0 OP2 A:G719 4.8 360.7 1.0 N9 A:G791 4.8 361.3 1.0 C2 A:G717 4.8 394.4 1.0 C4 A:U720 4.9 330.6 1.0 O4' A:G717 4.9 398.9 1.0 C5' A:G791 5.0 370.6 1.0

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


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1751 b:344.8 occ:1.00 OD1 J:ASN74 2.3 469.6 1.0 O6 A:G901 2.3 327.4 1.0 N7 A:G901 3.0 333.3 1.0 C6 A:G901 3.1 332.0 1.0 CG J:ASN74 3.3 468.8 1.0 C5 A:G901 3.3 333.8 1.0 N4 A:C900 3.6 358.6 1.0 C5 A:C900 3.6 362.1 1.0 O J:PRO73 3.7 474.9 1.0 CA J:ASN74 3.7 462.2 1.0 N3 A:C890 3.8 352.2 1.0 C4 A:C900 3.9 359.3 1.0 O2 A:C890 3.9 347.4 1.0 CB J:ASN74 4.0 466.2 1.0 C2 A:C890 4.1 351.1 1.0 C J:PRO73 4.2 479.4 1.0 C8 A:G901 4.2 335.9 1.0 N J:ASN74 4.2 473.2 1.0 ND2 J:ASN74 4.3 470.8 1.0 N1 A:G901 4.4 334.4 1.0 C6 A:C900 4.5 362.6 1.0 C4 A:C890 4.6 356.5 1.0 C4 A:G901 4.7 337.6 1.0 N4 A:C890 4.8 358.1 1.0 C J:ASN74 4.9 446.6 1.0 N J:SER75 4.9 430.0 1.0 N3 A:C900 4.9 357.4 1.0

Potassium binding site 4 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1752 b:417.5 occ:1.00 O2 A:C1105 2.3 420.6 1.0 O2' A:C1105 2.4 420.3 1.0 C1' A:C1105 2.9 419.7 1.0 C2' A:C1105 3.1 419.2 1.0 C2 A:C1105 3.3 419.3 1.0 O3' A:C1105 3.3 427.3 1.0 O3' A:U1592 3.5 430.1 1.0 OP2 A:U1107 3.5 435.7 1.0 O2' A:U1592 3.5 425.8 1.0 N1 A:C1105 3.5 418.8 1.0 C3' A:C1105 3.8 421.4 1.0 C5' A:U1593 3.8 446.7 1.0 N2 A:G1594 3.8 451.1 1.0 O4' A:C1105 4.0 419.5 1.0 C5' A:U1107 4.2 432.7 1.0 C3' A:U1592 4.3 426.0 1.0 C4' A:U1592 4.4 424.4 1.0 C5' A:C1106 4.4 458.6 1.0 C4' A:C1105 4.4 420.1 1.0 OP1 A:U1593 4.5 451.5 1.0 N3 A:C1105 4.5 419.3 1.0 P A:U1593 4.5 453.5 1.0 C2' A:U1592 4.5 424.8 1.0 O4' A:U1107 4.5 433.6 1.0 O5' A:U1593 4.6 447.2 1.0 P A:C1106 4.6 463.4 1.0 C4' A:U1107 4.6 433.4 1.0 P A:U1107 4.7 437.8 1.0 OP2 A:C1106 4.7 455.4 1.0 O5' A:U1107 4.8 433.7 1.0 C3' A:C1106 4.8 457.2 1.0 C6 A:C1105 4.9 418.0 1.0 C4' A:U1593 4.9 445.7 1.0 O5' A:C1106 5.0 459.2 1.0

Potassium binding site 5 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1753 b:381.0 occ:1.00 N7 A:G1199 2.1 399.5 1.0 OP2 A:G1199 2.3 404.1 1.0 N7 A:G1200 2.4 357.3 1.0 C8 A:G1199 2.5 402.7 1.0 C5 A:G1199 3.4 397.8 1.0 C8 A:G1200 3.4 357.5 1.0 C5 A:G1200 3.4 354.5 1.0 O6 A:G1200 3.5 353.6 1.0 N7 A:G1421 3.6 379.7 1.0 C8 A:G1421 3.7 381.1 1.0 N9 A:G1199 3.8 402.7 1.0 P A:G1199 3.8 410.6 1.0 C6 A:G1200 3.8 354.6 1.0 O5' A:A1198 4.0 383.6 1.0 OP2 A:A1198 4.2 380.4 1.0 C3' A:A1198 4.2 392.3 1.0 C4 A:G1199 4.2 399.6 1.0 C5 A:G1421 4.2 381.5 1.0 C6 A:G1199 4.3 395.0 1.0 O6 A:G1199 4.4 392.5 1.0 N9 A:G1421 4.4 381.1 1.0 O5' A:G1199 4.5 404.5 1.0 O3' A:A1198 4.5 394.3 1.0 C8 A:A1198 4.6 386.1 1.0 N9 A:G1200 4.6 355.2 1.0 C4 A:G1200 4.6 354.0 1.0 P A:A1198 4.6 374.8 1.0 C4 A:G1421 4.7 381.6 1.0 N7 A:A1198 4.8 382.9 1.0 OP1 A:G1199 4.8 401.4 1.0 C1' A:G1199 4.9 400.9 1.0 C6 A:G1421 4.9 382.5 1.0 N9 A:A1198 5.0 389.4 1.0 C2' A:A1198 5.0 393.0 1.0 O4' A:G1199 5.0 402.7 1.0

Potassium binding site 6 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1754 b:404.3 occ:1.00 N7 A:G1361 3.3 397.5 1.0 N7 A:G1362 3.6 389.9 1.0 OP1 A:G1199 3.6 401.4 1.0 C5' A:G1199 3.7 402.1 1.0 O3' A:A1198 3.7 394.3 1.0 O5' A:G1199 3.8 404.5 1.0 C8 A:G1361 3.9 397.0 1.0 P A:G1199 4.0 410.6 1.0 O6 A:G1362 4.1 394.4 1.0 OP2 A:G1361 4.1 403.3 1.0 C5 A:G1361 4.1 395.7 1.0 O6 A:G1361 4.4 394.3 1.0 C5 A:G1362 4.5 390.4 1.0 C8 A:G1362 4.6 388.6 1.0 C6 A:G1361 4.6 394.8 1.0 C6 A:G1362 4.6 392.8 1.0 O2' A:A1198 4.7 395.9 1.0 K A:K1755 4.8 404.1 1.0 N9 A:G1361 5.0 395.1 1.0

Potassium binding site 7 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1755 b:404.1 occ:1.00 OP2 A:G1200 1.8 362.2 1.0 P A:G1200 2.6 355.1 1.0 OP1 A:G1200 2.7 355.2 1.0 OP2 A:A1201 3.3 410.4 1.0 O5' A:G1199 3.5 404.5 1.0 OP1 A:G1199 3.7 401.4 1.0 O5' A:G1200 3.8 355.1 1.0 O3' A:G1199 3.8 396.2 1.0 P A:G1199 4.2 410.6 1.0 C3' A:G1199 4.4 399.6 1.0 C5' A:G1199 4.5 402.1 1.0 C5' A:G1200 4.6 356.8 1.0 N7 A:A1201 4.7 412.1 1.0 P A:A1201 4.7 409.5 1.0 K A:K1754 4.8 404.3 1.0 C3' A:G1200 4.8 359.8 1.0 OP2 A:G1199 4.9 404.1 1.0 C4' A:G1199 5.0 400.7 1.0

Potassium binding site 8 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1756 b:387.3 occ:1.00 O6 A:G1336 2.3 400.0 1.0 O4 A:U1257 2.5 386.4 1.0 N6 A:A1256 3.1 392.2 1.0 C6 A:G1336 3.3 398.0 1.0 O4 A:U1337 3.3 401.1 1.0 O2 A:C1330 3.4 403.6 1.0 C4 A:U1257 3.5 386.6 1.0 N7 A:G1336 3.6 395.9 1.0 C5 A:G1336 3.8 395.8 1.0 N3 A:U1257 3.8 389.2 1.0 C2 A:C1330 3.8 405.3 1.0 N3 A:U1335 4.0 374.8 1.0 N3 A:C1330 4.0 407.8 1.0 C4 A:U1337 4.1 402.5 1.0 C6 A:A1256 4.2 392.3 1.0 O4 A:U1335 4.3 368.6 1.0 C4 A:U1335 4.4 372.3 1.0 N1 A:G1336 4.5 398.4 1.0 N3 A:U1337 4.6 405.9 1.0 C2 A:U1335 4.7 377.0 1.0 N1 A:C1330 4.7 406.2 1.0 C5 A:U1257 4.8 384.5 1.0 O2 A:U1335 4.8 378.5 1.0 N6 A:A1260 4.8 401.3 1.0 N1 A:A1256 4.9 395.5 1.0 C8 A:G1336 4.9 395.4 1.0 O2' A:C1330 5.0 400.8 1.0 C4 A:C1330 5.0 407.7 1.0

Potassium binding site 9 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1757 b:364.1 occ:1.00 O6 A:G1328 3.2 365.3 1.0 O4 A:U1329 3.3 376.3 1.0 OP2 A:C1262 3.5 386.0 1.0 O6 A:G1263 4.2 387.6 1.0 C6 A:G1328 4.3 367.6 1.0 C4 A:U1329 4.5 376.9 1.0 N4 A:C1264 4.6 364.6 1.0 O6 A:G1327 4.7 382.3 1.0 MG A:MG1738 4.8 395.5 1.0 P A:C1262 4.8 384.1 1.0 N7 A:G1328 4.8 369.0 1.0 C5 A:G1328 4.9 369.0 1.0

Potassium binding site 10 out of 17 in the Mt-Ssu Assembly Intermediate in GTPBP8 Knock-Out Cells, State 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K1758 b:352.1 occ:1.00 O6 A:G1334 2.7 366.7 1.0 O4' A:C1330 2.8 406.1 1.0 O4 A:U1335 3.1 368.6 1.0 C1' A:C1330 3.2 404.0 1.0 O3' A:C1330 3.3 400.4 1.0 C4' A:C1330 3.4 405.8 1.0 N7 A:G1334 3.4 372.0 1.0 C6 A:G1334 3.6 369.0 1.0 O2 A:C1330 3.8 403.6 1.0 C3' A:C1330 3.8 403.8 1.0 C5 A:G1334 3.8 371.1 1.0 C4 A:U1335 3.9 372.3 1.0 C2' A:C1330 4.2 403.3 1.0 N1 A:C1330 4.2 406.2 1.0 N3 A:U1335 4.3 374.8 1.0 O6 A:G1333 4.4 368.7 1.0 C2 A:C1330 4.4 405.3 1.0 N7 A:G1333 4.5 374.9 1.0 P A:A1331 4.6 410.1 1.0 C8 A:G1334 4.7 374.5 1.0 OP2 A:A1331 4.7 411.9 1.0 C5' A:C1330 4.7 406.7 1.0 N6 A:A1258 4.7 385.4 1.0 O2' A:C1330 4.7 400.8 1.0 C5' A:A1331 4.7 415.5 1.0 C6 A:G1333 4.8 373.5 1.0 C5 A:U1335 4.8 373.8 1.0 C5 A:G1333 4.8 376.2 1.0 N1 A:G1334 4.9 370.8 1.0 N4 A:C1261 4.9 382.0 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 Is Essential For Mitoribosome Formation in Human Mitochondria Nat Commun 2024.
ISSN: ESSN 2041-1723