Calcium in PDB 8qby: Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs

The structure of Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs also contains other interesting chemical elements:

Zinc	(Zn)	1 atom
Sodium	(Na)	1 atom
Iron	(Fe)	28 atoms

The binding sites of Calcium atom in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs (pdb code 8qby). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs, PDB code: 8qby:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca205 b:62.5 occ:1.00 O R:HOH416 2.2 38.0 1.0 OD2 I:ASP88 2.2 49.1 1.0 O R:HOH404 2.3 36.6 1.0 O R:HOH411 2.4 39.0 1.0 OD2 R:ASP48 2.6 36.9 1.0 O R:HOH420 2.7 36.7 1.0 CG I:ASP88 3.3 45.2 1.0 CG R:ASP48 3.5 30.0 1.0 CB I:ASP88 3.8 40.6 1.0 NH2 I:ARG86 4.0 41.3 1.0 OE2 R:GLU43 4.0 34.1 1.0 CB R:ASP48 4.1 20.6 1.0 OD1 I:ASP88 4.3 44.0 1.0 OD1 R:ASP48 4.4 30.5 1.0 CD R:GLU43 4.5 34.0 1.0 OE1 R:GLU43 4.6 31.7 1.0 O I:HOH302 4.6 39.5 1.0 O R:ILE3 4.7 36.3 1.0 O R:ASP48 4.8 31.3 1.0 CG2 R:ILE3 4.8 40.0 1.0 CA R:ALA5 4.9 26.5 1.0 CD R:PRO6 4.9 33.0 1.0 O R:PRO4 4.9 38.2 1.0 CB R:ILE3 5.0 40.3 1.0

Calcium binding site 2 out of 4 in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ N:Ca506 b:56.5 occ:1.00 O N:HOH627 2.0 40.8 1.0 O N:HOH620 2.1 48.1 1.0 O N:LEU477 2.3 41.4 1.0 OD1 N:ASP260 2.6 41.4 1.0 C N:LEU477 3.5 30.5 1.0 O N:HOH658 3.5 54.7 1.0 CG N:ASP260 3.8 38.8 1.0 O N:PHE259 4.1 40.1 1.0 CA N:LEU477 4.3 31.1 1.0 O N:VAL478 4.3 42.5 1.0 C N:VAL478 4.4 41.4 1.0 OD2 N:ASP260 4.4 41.9 1.0 O N:THR476 4.4 44.7 1.0 N N:VAL478 4.5 36.4 1.0 CA N:ASP260 4.5 33.8 1.0 CA N:VAL478 4.6 38.6 1.0 C N:PHE259 4.6 31.0 1.0 CD1 N:LEU477 4.8 36.0 1.0 CB N:ASP260 4.8 32.4 1.0 N N:ASP260 4.8 33.5 1.0 N N:GLY479 4.9 42.6 1.0 CG N:LEU477 5.0 30.6 1.0

Calcium binding site 3 out of 4 in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca502 b:47.1 occ:1.00 OD2 D:ASP49 2.2 52.3 1.0 O D:ARG6 2.2 51.8 1.0 OD1 D:ASN8 2.3 48.8 1.0 OE2 D:GLU54 2.5 41.4 1.0 O D:HOH703 2.7 46.0 1.0 OE1 D:GLU54 2.9 52.1 1.0 CD D:GLU54 3.1 43.4 1.0 CG D:ASP49 3.3 44.1 1.0 C D:ARG6 3.3 45.6 1.0 CG D:ASN8 3.3 41.7 1.0 ND2 D:ASN8 3.9 40.6 1.0 CB D:ASP49 3.9 40.7 1.0 CA D:ARG6 4.0 43.4 1.0 N D:ASN8 4.1 44.7 1.0 O D:ILE5 4.2 47.4 1.0 OD1 D:ASP49 4.2 45.2 1.0 O D:HOH748 4.2 61.1 1.0 N D:LYS7 4.4 46.0 1.0 NH1 J:ARG169 4.5 28.6 1.0 CB D:ASN8 4.5 41.5 1.0 CG D:GLU54 4.6 37.4 1.0 CA D:LYS7 4.6 45.5 1.0 NH2 J:ARG169 4.7 20.4 1.0 C D:LYS7 4.7 47.7 1.0 CA D:ASN8 4.7 42.2 1.0 CZ J:ARG169 4.9 23.3 1.0 CB D:ARG6 4.9 46.1 1.0

Calcium binding site 4 out of 4 in the Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Respiratory Complex I From Paracoccus Denitrificans in MSP2N2 Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ M:Ca609 b:59.2 occ:1.00 O M:PRO275 2.5 42.5 1.0 O M:LEU197 2.6 49.0 1.0 C M:PRO275 3.6 41.1 1.0 C M:LEU197 3.7 44.1 1.0 CA M:PRO275 4.4 37.7 1.0 O M:PHE199 4.4 54.0 1.0 N M:MET276 4.4 40.8 1.0 CA M:MET276 4.4 36.5 1.0 CA M:LEU197 4.5 44.8 1.0 CG M:PRO278 4.6 40.0 1.0 N M:THR198 4.6 49.1 1.0 CA M:THR198 4.7 48.2 1.0 CB M:PRO275 4.9 39.1 1.0 C M:THR198 5.0 49.0 1.0

B.S.Ivanov, H.R.Bridges, J.Hirst, O.D.Jarman. Respiratory Complex I From Paracoccus Denitrificans To Be Published.