Calcium in PDB 9mqs: Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex

The structure of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Calcium atom in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex (pdb code 9mqs). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex, PDB code: 9mqs:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:50.0 occ:1.00 O3' A:5GP409 2.1 11.5 1.0 C5' A:U0 2.4 111.3 1.0 C3' A:5GP409 3.0 18.2 1.0 OP1 A:U0 3.0 111.3 1.0 O A:HOH501 3.2 50.0 1.0 O3P A:5GP409 3.2 11.8 1.0 C4' A:U0 3.3 111.3 1.0 O5' A:U0 3.5 111.3 1.0 O3' A:U0 3.7 111.3 1.0 P A:U0 3.8 111.3 1.0 C2' A:5GP409 3.8 18.1 1.0 C3' A:U0 3.9 111.3 1.0 O2' A:5GP409 4.1 15.2 1.0 C4' A:5GP409 4.3 22.2 1.0 OP2 A:A1 4.3 128.9 1.0 O3' A:A-1 4.4 80.2 1.0 O4' A:U0 4.6 111.3 1.0 P A:5GP409 4.6 17.3 1.0 P A:A1 4.7 128.9 1.0 C5' A:5GP409 4.8 20.0 1.0 O5' A:5GP409 5.0 14.8 1.0

Calcium binding site 2 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:30.0 occ:1.00 O2' A:A253 2.9 67.4 1.0 O3' A:A253 3.5 67.4 1.0 OP2 A:U254 3.7 38.7 1.0 OP2 A:A255 3.9 35.0 1.0 C2' A:A253 4.1 67.4 1.0 P A:U254 4.2 38.7 1.0 N3 A:A253 4.4 67.4 1.0 C3' A:A253 4.4 67.4 1.0 N7 A:A255 4.5 35.0 1.0 C1' A:A253 4.6 67.4 1.0 O5' A:U254 4.7 38.7 1.0 C8 A:A255 4.8 35.0 1.0 C2 A:A151 4.8 41.0 1.0 O6 A:5GP409 4.9 18.0 1.0 C5 A:U254 5.0 38.7 1.0 N7 A:5GP409 5.0 15.5 1.0

Calcium binding site 3 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:30.0 occ:1.00 OP2 A:A253 2.4 67.4 1.0 OP1 A:U254 2.9 38.7 1.0 OP1 A:A251 3.0 38.2 1.0 O2' A:A-1 3.1 80.2 1.0 P A:A253 3.6 67.4 1.0 OP1 A:A253 3.9 67.4 1.0 P A:U254 4.0 38.7 1.0 O2' A:5GP409 4.1 15.2 1.0 OP2 A:U254 4.2 38.7 1.0 P A:A251 4.4 38.2 1.0 C2' A:A-1 4.4 80.2 1.0 O5' A:A253 4.5 67.4 1.0 O3' A:A-1 4.6 80.2 1.0 C5' A:U254 4.7 38.7 1.0 O3' A:C252 4.7 47.9 1.0 O5' A:U254 4.8 38.7 1.0 C4' A:A-1 4.9 80.2 1.0 C3' A:A-1 4.9 80.2 1.0 O5' A:A251 4.9 38.2 1.0

Calcium binding site 4 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca404 b:30.0 occ:1.00 OP1 A:A255 2.2 35.0 1.0 P A:A255 3.6 35.0 1.0 O3' A:U254 4.1 38.7 1.0 O5' A:A255 4.2 35.0 1.0 OP2 A:A-1 4.3 80.2 1.0 C5' A:A-1 4.3 80.2 1.0 OP1 A:A-1 4.6 80.2 1.0 OP2 A:A255 4.7 35.0 1.0 P A:A-1 4.7 80.2 1.0 C5' A:A255 4.8 35.0 1.0 O5' A:A-1 4.8 80.2 1.0

Calcium binding site 5 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca405 b:30.0 occ:1.00 OP1 A:U148 2.3 45.2 1.0 P A:U148 3.8 45.2 1.0 C5' A:U148 4.3 45.2 1.0 N3 A:A251 4.3 38.2 1.0 OP2 A:A151 4.3 41.0 1.0 O3' A:A251 4.4 38.2 1.0 O3' A:G147 4.5 44.1 1.0 O5' A:U148 4.5 45.2 1.0 O5' A:C252 4.5 47.9 1.0 OP2 A:U149 4.5 50.2 1.0 O4' A:A251 4.6 38.2 1.0 C1' A:A251 4.6 38.2 1.0 O4' A:A253 4.6 67.4 1.0 C8 A:A253 4.8 67.4 1.0 OP2 A:U148 4.8 45.2 1.0 O2' A:C150 4.8 49.7 1.0 OP2 A:C252 5.0 47.9 1.0

Calcium binding site 6 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca406 b:30.0 occ:1.00 OP1 A:U149 2.8 50.2 1.0 P A:U149 4.2 50.2 1.0 O2' A:U51 4.3 45.5 1.0 OP1 A:A151 4.4 41.0 1.0 N7 A:A151 4.4 41.0 1.0 O3' A:U148 4.6 45.2 1.0 C5' A:G154 4.7 36.1 1.0 C2' A:U51 4.7 45.5 1.0 N7 A:A253 4.7 67.4 1.0 OP2 A:A155 4.8 39.5 1.0 OP1 A:A155 4.8 39.5 1.0 OP2 A:U52 4.9 58.2 1.0 O5' A:U149 4.9 50.2 1.0 C8 A:A151 4.9 41.0 1.0 O3' A:G154 5.0 36.1 1.0

Calcium binding site 7 out of 7 in the Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cryoem Structure of the Candida Albicans Group I Intron-Gmp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca407 b:30.0 occ:1.00 O4 A:U149 2.7 50.2 1.0 OP2 A:U148 2.8 45.2 1.0 OP2 A:G147 3.9 44.1 1.0 C4 A:U149 3.9 50.2 1.0 P A:U148 4.2 45.2 1.0 OP2 A:C252 4.2 47.9 1.0 P A:G147 4.5 44.1 1.0 OP1 A:G147 4.5 44.1 1.0 O5' A:G147 4.5 44.1 1.0 O2 A:C150 4.5 49.7 1.0 N3 A:C150 4.7 49.7 1.0 N3 A:U149 4.8 50.2 1.0 O3' A:G147 4.8 44.1 1.0 C5 A:U149 4.9 50.2 1.0 C2 A:C150 4.9 49.7 1.0 C3' A:G147 5.0 44.1 1.0 OP1 A:U148 5.0 45.2 1.0

T.Liu, K.Chung, L.Xu. Cryoem Structure of Complex 1 - Gmp To Be Published.