Potassium in PDB 8xtq: Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State

The structure of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State also contains other interesting chemical elements:

Magnesium

(Mg)

32 atoms

The binding sites of Potassium atom in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State (pdb code 8xtq). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 5 binding sites of Potassium where determined in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State, PDB code: 8xtq:
Jump to Potassium binding site number: 1; 2; 3; 4; 5;

Potassium binding site 1 out of 5 in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K901 b:10.5 occ:1.00 OP2 A:A60 2.5 25.2 1.0 O6 A:G696 2.9 15.1 1.0 O5' A:G83 3.2 22.7 1.0 OP2 A:G61 3.3 25.0 1.0 O4' A:G83 3.3 21.3 1.0 P A:A60 3.5 22.2 1.0 N1 A:A695 3.6 28.3 1.0 OP1 A:G83 3.7 15.8 1.0 C2 A:A695 3.7 27.4 1.0 O5' A:A60 3.9 23.8 1.0 C6 A:G696 3.9 14.4 1.0 OP1 A:A60 3.9 28.1 1.0 N7 A:G696 4.1 18.4 1.0 P A:G83 4.1 21.8 1.0 C5' A:G83 4.1 17.1 1.0 C4' A:G83 4.1 17.6 1.0 C5' A:G61 4.2 16.9 1.0 C5 A:G696 4.3 18.5 1.0 C1' A:G83 4.4 13.5 1.0 N6 A:A697 4.4 12.5 1.0 P A:G61 4.6 25.8 1.0 O5' A:G61 4.8 22.6 1.0 MG A:MG906 4.8 27.0 1.0 C8 A:G83 4.8 12.1 1.0 O3' A:U59 4.9 19.9 1.0 C6 A:A695 4.9 24.7 1.0 N9 A:G83 4.9 10.6 1.0 O3' A:U82 5.0 22.3 1.0 N3 A:A695 5.0 30.1 1.0

Potassium binding site 2 out of 5 in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K902 b:30.9 occ:1.00 OP2 A:G224 2.5 25.3 1.0 OP1 A:A695 3.0 17.1 1.0 P A:G224 3.7 21.6 1.0 OP1 A:G224 4.1 20.3 1.0 OP2 A:C223 4.4 22.3 1.0 P A:A695 4.5 25.3 1.0 C8 A:G224 4.5 11.4 1.0 O3' A:C223 4.5 16.9 1.0 C3' A:G694 4.6 20.3 1.0 N7 A:G224 4.7 8.6 1.0 OP1 A:C223 4.7 16.4 1.0 P A:C223 4.9 23.6 1.0 O5' A:G224 5.0 14.4 1.0 C3' A:C223 5.0 18.7 1.0

Potassium binding site 3 out of 5 in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K903 b:35.4 occ:1.00 OP2 A:G86 2.7 22.2 1.0 O6 A:G83 3.2 15.9 1.0 N7 A:G83 3.6 14.9 1.0 O4' A:G696 3.6 22.3 1.0 C6 A:G83 3.9 16.1 1.0 P A:G86 4.0 19.4 1.0 O5' A:G696 4.0 18.4 1.0 C5 A:G83 4.1 15.7 1.0 OP1 A:C85 4.3 13.3 1.0 C1' A:G696 4.3 19.4 1.0 OP1 A:G86 4.4 19.6 1.0 C4' A:G696 4.6 18.3 1.0 C8 A:G83 4.7 12.1 1.0 OP2 A:C85 4.8 18.5 1.0 OP1 A:G696 4.8 24.5 1.0 P A:C85 4.8 1.2 1.0 N9 A:G696 4.8 13.7 1.0 O5' A:C85 4.8 25.9 1.0 O5' A:G86 4.9 21.9 1.0 C5' A:G696 4.9 17.9 1.0 C8 A:G696 4.9 15.1 1.0 P A:G696 4.9 32.3 1.0 O3' A:A695 4.9 25.1 1.0

Potassium binding site 4 out of 5 in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K904 b:22.9 occ:1.00 O6 A:G425 3.5 16.9 1.0 O3' A:C81 3.6 16.8 1.0 O2' A:C81 3.6 19.2 1.0 N7 A:A424 3.8 13.1 1.0 OP2 A:U82 4.0 12.2 1.0 C8 A:A424 4.3 18.0 1.0 C3' A:C81 4.4 15.9 1.0 P A:U82 4.5 5.3 1.0 C4' A:C81 4.5 16.4 1.0 C6 A:G425 4.5 14.4 1.0 N7 A:G425 4.5 7.5 1.0 C2' A:C81 4.6 12.8 1.0 C5' A:U423 4.7 23.1 1.0 N4 A:C223 4.8 8.9 1.0 C5 A:G425 4.9 11.1 1.0 C5 A:A424 5.0 14.8 1.0

Potassium binding site 5 out of 5 in the Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Comamonas Testosteroni Kf-1 Circularly Permuted Group II Intron 1S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K905 b:39.5 occ:1.00 O6 A:G230 2.3 13.8 1.0 C6 A:G230 3.5 14.5 1.0 OP2 A:U627 3.7 27.0 1.0 C5 A:G230 4.3 8.0 1.0 N1 A:G230 4.5 11.3 1.0 N7 A:G230 4.5 5.1 1.0 P A:U627 4.5 34.5 1.0 OP1 A:U627 4.7 18.1 1.0 O5' A:U627 4.7 29.2 1.0

L.Wang, J.Xie, C.Zhang, J.Zou, Z.Huang, S.Shang, X.Chen, Y.Yang, J.Liu, H.Dong, D.Huang, Z.Su. Structural Basis of Circularly Permuted Group II Intron Self-Splicing. Nat.Struct.Mol.Biol. 2025.
ISSN: ESSN 1545-9985
PubMed: 39890981
DOI: 10.1038/S41594-025-01484-X