Potassium in PDB 9is7: Paracandidimonas Lactea Cp Group II Intron 2S State

The structure of Paracandidimonas Lactea Cp Group II Intron 2S State also contains other interesting chemical elements:

Magnesium

(Mg)

29 atoms

The binding sites of Potassium atom in the Paracandidimonas Lactea Cp Group II Intron 2S State (pdb code 9is7). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Paracandidimonas Lactea Cp Group II Intron 2S State, PDB code: 9is7:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Paracandidimonas Lactea Cp Group II Intron 2S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Paracandidimonas Lactea Cp Group II Intron 2S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K205 b:27.2 occ:1.00 OP2 B:A644 2.7 22.5 1.0 OP2 A:A30 2.8 19.1 1.0 C2 A:A30 3.1 12.4 1.0 O5' A:G29 3.4 16.1 1.0 N1 A:A30 3.5 17.6 1.0 P B:A644 3.8 29.4 1.0 C3' A:G29 3.8 17.4 1.0 C5' A:G29 3.8 11.5 1.0 P A:A30 4.0 21.5 1.0 OP1 B:A644 4.1 14.0 1.0 C5' B:A644 4.1 21.3 1.0 O3' A:G29 4.1 12.9 1.0 N3 A:A30 4.2 11.1 1.0 C4' A:G29 4.3 12.8 1.0 OP2 A:G29 4.4 17.7 1.0 O5' B:A644 4.5 13.9 1.0 C8 A:G29 4.5 11.0 1.0 P A:G29 4.6 26.9 1.0 C2 B:A644 4.6 10.2 1.0 O5' A:A30 4.7 25.2 1.0 N3 B:A644 4.8 2.4 1.0 C6 A:A30 4.9 13.7 1.0 C2' A:G29 4.9 15.8 1.0 O4' A:G29 4.9 15.1 1.0

Potassium binding site 2 out of 4 in the Paracandidimonas Lactea Cp Group II Intron 2S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Paracandidimonas Lactea Cp Group II Intron 2S State within 5.0Å range: probe atom residue distance (Å) B Occ A:K206 b:32.0 occ:1.00 OP2 A:G57 2.7 14.8 1.0 O6 A:G54 2.7 22.6 1.0 OP2 A:C58 3.2 19.4 1.0 C6 A:G54 3.6 13.1 1.0 O5' A:G57 3.7 21.4 1.0 P A:G57 3.7 0.0 1.0 N1 A:G54 4.0 0.7 1.0 OP1 A:G57 4.5 0.0 1.0 C8 A:G57 4.6 8.4 1.0 C3' A:G57 4.6 21.5 1.0 P A:C58 4.6 8.3 1.0 C5 A:G54 4.7 5.8 1.0 C5 A:C58 4.7 7.6 1.0 N7 A:G57 4.9 5.6 1.0 C5' A:G57 4.9 16.4 1.0 O3' A:C56 5.0 9.1 1.0

Potassium binding site 3 out of 4 in the Paracandidimonas Lactea Cp Group II Intron 2S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Paracandidimonas Lactea Cp Group II Intron 2S State within 5.0Å range: probe atom residue distance (Å) B Occ B:K826 b:29.6 occ:1.00 O6 B:G155 2.6 48.8 1.0 OP2 B:G158 2.6 23.2 1.0 OP2 B:A642 2.7 22.8 1.0 OP1 B:A642 2.9 17.1 1.0 P B:A642 3.2 26.9 1.0 C6 B:G155 3.4 47.5 1.0 N7 B:A642 3.5 26.6 1.0 C8 B:A642 3.5 26.1 1.0 N7 B:G155 3.6 47.2 1.0 C8 B:G158 3.8 10.2 1.0 C5 B:G155 3.8 48.0 1.0 N7 B:G158 3.9 8.5 1.0 P B:G158 3.9 23.9 1.0 O3' B:G641 4.1 22.6 1.0 C3' B:G641 4.1 17.4 1.0 O5' B:G158 4.2 18.0 1.0 O5' B:A642 4.6 27.8 1.0 N1 B:G155 4.6 49.4 1.0 O2' B:G641 4.7 16.7 1.0 N9 B:A642 4.8 30.6 1.0 OP1 B:G158 4.8 21.7 1.0 C8 B:G155 4.8 48.1 1.0 C5 B:A642 4.8 22.0 1.0 N9 B:G158 4.8 4.0 1.0 C2' B:G641 4.9 14.1 1.0 C5 B:G158 4.9 7.5 1.0

Potassium binding site 4 out of 4 in the Paracandidimonas Lactea Cp Group II Intron 2S State


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Paracandidimonas Lactea Cp Group II Intron 2S State within 5.0Å range: probe atom residue distance (Å) B Occ B:K827 b:25.3 occ:1.00 OP1 B:U356 3.8 15.8 1.0 O3' B:A355 3.8 20.8 1.0 O2' B:A355 3.9 17.1 1.0 O6 B:G156 4.1 8.3 1.0 P B:U356 4.5 6.7 1.0 O6 B:G358 4.5 15.4 1.0 C1' B:A355 4.7 16.0 1.0 N7 B:A357 4.7 13.4 1.0 C2' B:A355 4.7 15.5 1.0 N4 B:C157 4.8 4.8 1.0 C5' B:U356 4.8 18.0 1.0 C3' B:A355 4.9 19.5 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