Calcium in PDB 7uo5: E.Coli Rnasep Holoenzyme with MG2+

All present enzymatic activity of E.Coli Rnasep Holoenzyme with MG2+:
3.1.26.5;

The binding sites of Calcium atom in the E.Coli Rnasep Holoenzyme with MG2+ (pdb code 7uo5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the E.Coli Rnasep Holoenzyme with MG2+, PDB code: 7uo5:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:90.7 occ:1.00 OP2 B:A67 2.4 84.0 1.0 O4 B:U69 2.5 97.3 1.0 C4 B:U69 3.7 97.3 1.0 P B:A67 3.8 84.0 1.0 OP2 B:G68 4.1 90.0 1.0 H8 B:G68 4.2 90.0 1.0 H3 B:U69 4.4 97.3 1.0 OP1 B:A67 4.5 84.0 1.0 H5 B:U69 4.5 97.3 1.0 N3 B:U69 4.6 97.3 1.0 C5 B:U69 4.6 97.3 1.0 O3' B:A66 4.6 79.3 1.0 O5' B:A67 4.7 84.0 1.0 H3' B:A67 4.7 84.0 1.0 N7 B:G68 4.7 90.0 1.0 C8 B:G68 4.8 90.0 1.0 OP2 B:A352 4.9 80.3 1.0

Calcium binding site 2 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:96.8 occ:1.00 N7 B:G356 3.4 88.3 1.0 OP2 B:G356 3.9 88.3 1.0 C8 B:G356 4.3 88.3 1.0 H8 B:G356 4.3 88.3 1.0 N7 B:G357 4.4 88.7 1.0 C5 B:G356 4.4 88.3 1.0 O6 B:G356 4.5 88.3 1.0 H41 B:C355 4.6 83.1 1.0 H5 B:C355 4.6 83.1 1.0 N4 B:C355 4.7 83.1 1.0 C5 B:C355 4.7 83.1 1.0 C4 B:C355 4.7 83.1 1.0 CA B:CA407 4.7 115.0 1.0 C6 B:G356 4.8 88.3 1.0 H3' B:C355 4.9 83.1 1.0

Calcium binding site 3 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca403 b:80.5 occ:1.00 OP2 B:G250 2.4 96.4 1.0 OP1 B:A249 3.2 88.8 1.0 P B:G250 3.7 96.4 1.0 H5'' B:A249 4.0 88.8 1.0 OP1 B:G250 4.1 96.4 1.0 P B:A249 4.2 88.8 1.0 H5'' B:G250 4.4 96.4 1.0 HO2' B:A248 4.4 94.6 1.0 O5' B:A249 4.4 88.8 1.0 O3' B:A249 4.5 88.8 1.0 H3' B:A249 4.7 88.8 1.0 C5' B:A249 4.7 88.8 1.0 OP2 B:A249 4.7 88.8 1.0 O5' B:G250 4.9 96.4 1.0

Calcium binding site 4 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca404 b:92.2 occ:1.00 OP2 B:A11 2.5 104.2 1.0 P B:A11 4.0 104.2 1.0 N7 B:G64 4.1 85.7 1.0 H3' B:C10 4.1 111.9 1.0 H8 B:A11 4.4 104.2 1.0 O6 B:G64 4.5 85.7 1.0 O5' B:A11 4.7 104.2 1.0 OP1 B:A11 4.7 104.2 1.0 O3' B:C10 4.9 111.9 1.0 C5 B:G64 4.9 85.7 1.0 C3' B:C10 5.0 111.9 1.0 N7 B:A11 5.0 104.2 1.0

Calcium binding site 5 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca405 b:85.1 occ:1.00 O2 B:C301 2.5 87.4 1.0 N3 B:C301 2.7 87.4 1.0 C2 B:C301 3.0 87.4 1.0 O4 B:U331 3.5 78.4 1.0 O6 B:G300 3.7 92.7 1.0 H42 B:C301 3.8 87.4 1.0 C4 B:C301 3.8 87.4 1.0 N4 B:C301 4.2 87.4 1.0 N1 B:C301 4.3 87.4 1.0 HO2' B:G329 4.5 75.6 1.0 C6 B:G300 4.5 92.7 1.0 O2' B:G329 4.6 75.6 1.0 N7 B:G300 4.7 92.7 1.0 OP2 B:A330 4.7 78.0 1.0 C4 B:U331 4.7 78.4 1.0 H3 B:U331 4.7 78.4 1.0 C5 B:G300 4.9 92.7 1.0 O4 B:U302 4.9 84.4 1.0 H1' B:C301 4.9 87.4 1.0

Calcium binding site 6 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca406 b:113.8 occ:1.00 N7 B:A248 4.2 94.6 1.0 H2 B:A333 4.3 80.5 1.0 H62 B:A248 4.4 94.6 1.0 N1 B:A333 4.9 80.5 1.0 C8 B:A248 5.0 94.6 1.0 H8 B:A248 5.0 94.6 1.0

Calcium binding site 7 out of 7 in the E.Coli Rnasep Holoenzyme with MG2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of E.Coli Rnasep Holoenzyme with MG2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca407 b:115.0 occ:1.00 OP2 B:G356 2.3 88.3 1.0 OP1 B:G356 2.6 88.3 1.0 P B:G356 2.9 88.3 1.0 O3' B:C355 4.0 83.1 1.0 O5' B:G356 4.1 88.3 1.0 H3' B:C355 4.5 83.1 1.0 CA B:CA402 4.7 96.8 1.0 C3' B:C355 4.9 83.1 1.0 OP2 B:G357 4.9 88.7 1.0

J.Zhu, W.Huang, J.Zhao, L.Huynh, D.J.Taylor, M.E.Harris. Structural and Mechanistic Basis For Recognition of Alternative Trna Precursor Substrates By Bacterial Ribonuclease P. Nat Commun V. 13 5120 2022.
ISSN: ESSN 2041-1723
PubMed: 36045135
DOI: 10.1038/S41467-022-32843-7