Calcium in PDB 8wv4: C-Reactive Protein, Pentamer

The binding sites of Calcium atom in the C-Reactive Protein, Pentamer (pdb code 8wv4). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the C-Reactive Protein, Pentamer, PDB code: 8wv4:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:95.0 occ:1.00 NE2 A:GLN150 2.3 78.3 1.0 OE1 A:GLU147 2.3 85.3 1.0 OE1 A:GLU138 2.4 82.7 1.0 OD2 A:ASP140 2.5 87.8 1.0 OE2 A:GLU147 2.5 85.3 1.0 OD1 A:ASP140 2.6 87.8 1.0 CD A:GLU147 2.7 85.3 1.0 CG A:ASP140 2.9 87.8 1.0 CD A:GLN150 2.9 78.3 1.0 OE1 A:GLN150 3.0 78.3 1.0 CD A:GLU138 3.1 82.7 1.0 OE2 A:GLU138 3.4 82.7 1.0 CG A:GLN150 4.2 78.3 1.0 CG A:GLU147 4.2 85.3 1.0 CB A:ASP140 4.4 87.8 1.0 CG A:GLU138 4.4 82.7 1.0 CA A:CA302 4.4 98.7 1.0 CB A:GLN150 4.7 78.3 1.0 CB A:GLU147 4.8 85.3 1.0 CB A:GLU138 4.9 82.7 1.0

Calcium binding site 2 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:98.7 occ:1.00 OD1 A:ASP140 2.2 87.8 1.0 OE2 A:GLU138 2.4 82.7 1.0 OD2 A:ASP60 2.4 88.5 1.0 OD1 A:ASN61 2.4 82.5 1.0 O A:GLN139 2.5 83.2 1.0 CG A:ASP60 2.5 88.5 1.0 OD1 A:ASP60 2.5 88.5 1.0 CA A:ASP140 2.5 87.8 1.0 CG A:ASP140 2.5 87.8 1.0 CB A:ASP140 2.8 87.8 1.0 N A:ASP140 3.1 87.8 1.0 C A:GLN139 3.1 83.2 1.0 OD2 A:ASP140 3.4 87.8 1.0 CG A:ASN61 3.5 82.5 1.0 CD A:GLU138 3.5 82.7 1.0 CB A:ASP60 3.6 88.5 1.0 C A:ASP140 3.8 87.8 1.0 ND2 A:ASN61 3.9 82.5 1.0 OE1 A:GLU138 4.0 82.7 1.0 O A:ASP60 4.2 88.5 1.0 C A:ASP60 4.3 88.5 1.0 O A:ASP140 4.3 87.8 1.0 CA A:CA301 4.4 95.0 1.0 CA A:GLN139 4.5 83.2 1.0 CA A:ASP60 4.6 88.5 1.0 N A:SER141 4.7 89.4 1.0 CG A:GLU138 4.7 82.7 1.0 N A:ASN61 4.7 82.5 1.0 CB A:ASN61 4.8 82.5 1.0 N A:GLN139 4.9 83.2 1.0

Calcium binding site 3 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:88.1 occ:1.00 NE2 B:GLN150 2.3 77.3 1.0 OE1 B:GLU147 2.3 83.0 1.0 OE1 B:GLU138 2.4 81.6 1.0 OD2 B:ASP140 2.5 86.2 1.0 OE2 B:GLU147 2.5 83.0 1.0 OD1 B:ASP140 2.6 86.2 1.0 CD B:GLU147 2.7 83.0 1.0 CG B:ASP140 2.9 86.2 1.0 CD B:GLN150 2.9 77.3 1.0 OE1 B:GLN150 3.0 77.3 1.0 CD B:GLU138 3.1 81.6 1.0 OE2 B:GLU138 3.4 81.6 1.0 CG B:GLN150 4.2 77.3 1.0 CG B:GLU147 4.2 83.0 1.0 CB B:ASP140 4.4 86.2 1.0 CG B:GLU138 4.4 81.6 1.0 CA B:CA302 4.4 95.1 1.0 CB B:GLN150 4.7 77.3 1.0 CB B:GLU147 4.8 83.0 1.0 CB B:GLU138 4.9 81.6 1.0

Calcium binding site 4 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:95.1 occ:1.00 OD1 B:ASP140 2.2 86.2 1.0 OE2 B:GLU138 2.4 81.6 1.0 OD2 B:ASP60 2.4 88.0 1.0 OD1 B:ASN61 2.4 82.7 1.0 O B:GLN139 2.5 82.5 1.0 CG B:ASP60 2.5 88.0 1.0 OD1 B:ASP60 2.5 88.0 1.0 CA B:ASP140 2.5 86.2 1.0 CG B:ASP140 2.5 86.2 1.0 CB B:ASP140 2.8 86.2 1.0 N B:ASP140 3.1 86.2 1.0 C B:GLN139 3.1 82.5 1.0 OD2 B:ASP140 3.4 86.2 1.0 CG B:ASN61 3.5 82.7 1.0 CD B:GLU138 3.5 81.6 1.0 CB B:ASP60 3.6 88.0 1.0 C B:ASP140 3.8 86.2 1.0 ND2 B:ASN61 3.9 82.7 1.0 OE1 B:GLU138 4.0 81.6 1.0 O B:ASP60 4.2 88.0 1.0 C B:ASP60 4.3 88.0 1.0 O B:ASP140 4.3 86.2 1.0 CA B:CA301 4.4 88.1 1.0 CA B:GLN139 4.5 82.5 1.0 CA B:ASP60 4.6 88.0 1.0 N B:SER141 4.7 87.4 1.0 CG B:GLU138 4.7 81.6 1.0 N B:ASN61 4.7 82.7 1.0 CB B:ASN61 4.8 82.7 1.0 N B:GLN139 4.9 82.5 1.0

Calcium binding site 5 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca301 b:92.3 occ:1.00 NE2 C:GLN150 2.3 79.1 1.0 OE1 C:GLU147 2.3 85.5 1.0 OE1 C:GLU138 2.4 84.5 1.0 OD2 C:ASP140 2.5 88.2 1.0 OE2 C:GLU147 2.5 85.5 1.0 OD1 C:ASP140 2.6 88.2 1.0 CD C:GLU147 2.7 85.5 1.0 CG C:ASP140 2.9 88.2 1.0 CD C:GLN150 2.9 79.1 1.0 OE1 C:GLN150 3.0 79.1 1.0 CD C:GLU138 3.1 84.5 1.0 OE2 C:GLU138 3.4 84.5 1.0 CG C:GLN150 4.2 79.1 1.0 CG C:GLU147 4.2 85.5 1.0 CB C:ASP140 4.4 88.2 1.0 CG C:GLU138 4.4 84.5 1.0 CA C:CA302 4.4 94.2 1.0 CB C:GLN150 4.7 79.1 1.0 CB C:GLU147 4.8 85.5 1.0 CB C:GLU138 4.9 84.5 1.0

Calcium binding site 6 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca302 b:94.2 occ:1.00 OD1 C:ASP140 2.2 88.2 1.0 OE2 C:GLU138 2.4 84.5 1.0 OD2 C:ASP60 2.4 87.6 1.0 OD1 C:ASN61 2.4 82.6 1.0 O C:GLN139 2.5 84.1 1.0 CG C:ASP60 2.5 87.6 1.0 CA C:ASP140 2.5 88.2 1.0 OD1 C:ASP60 2.5 87.6 1.0 CG C:ASP140 2.5 88.2 1.0 CB C:ASP140 2.8 88.2 1.0 N C:ASP140 3.1 88.2 1.0 C C:GLN139 3.1 84.1 1.0 OD2 C:ASP140 3.4 88.2 1.0 CG C:ASN61 3.5 82.6 1.0 CD C:GLU138 3.5 84.5 1.0 CB C:ASP60 3.6 87.6 1.0 C C:ASP140 3.8 88.2 1.0 ND2 C:ASN61 3.9 82.6 1.0 OE1 C:GLU138 4.0 84.5 1.0 O C:ASP60 4.2 87.6 1.0 C C:ASP60 4.3 87.6 1.0 O C:ASP140 4.3 88.2 1.0 CA C:CA301 4.4 92.3 1.0 CA C:GLN139 4.5 84.1 1.0 CA C:ASP60 4.6 87.6 1.0 N C:SER141 4.7 88.6 1.0 CG C:GLU138 4.7 84.5 1.0 N C:ASN61 4.7 82.6 1.0 CB C:ASN61 4.8 82.6 1.0 N C:GLN139 4.9 84.1 1.0

Calcium binding site 7 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca301 b:91.2 occ:1.00 NE2 D:GLN150 2.3 78.2 1.0 OE1 D:GLU147 2.3 86.1 1.0 OE1 D:GLU138 2.4 83.3 1.0 OD2 D:ASP140 2.5 88.0 1.0 OE2 D:GLU147 2.5 86.1 1.0 OD1 D:ASP140 2.6 88.0 1.0 CD D:GLU147 2.7 86.1 1.0 CG D:ASP140 2.9 88.0 1.0 CD D:GLN150 2.9 78.2 1.0 OE1 D:GLN150 3.0 78.2 1.0 CD D:GLU138 3.1 83.3 1.0 OE2 D:GLU138 3.4 83.3 1.0 CG D:GLN150 4.2 78.2 1.0 CG D:GLU147 4.2 86.1 1.0 CB D:ASP140 4.4 88.0 1.0 CG D:GLU138 4.4 83.3 1.0 CA D:CA302 4.4 98.0 1.0 CB D:GLN150 4.7 78.2 1.0 CB D:GLU147 4.8 86.1 1.0 CB D:GLU138 4.9 83.3 1.0

Calcium binding site 8 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca302 b:98.0 occ:1.00 OD1 D:ASP140 2.2 88.0 1.0 OE2 D:GLU138 2.4 83.3 1.0 OD2 D:ASP60 2.4 87.5 1.0 OD1 D:ASN61 2.4 81.9 1.0 O D:GLN139 2.5 82.8 1.0 CG D:ASP60 2.5 87.5 1.0 OD1 D:ASP60 2.5 87.5 1.0 CA D:ASP140 2.5 88.0 1.0 CG D:ASP140 2.5 88.0 1.0 CB D:ASP140 2.8 88.0 1.0 N D:ASP140 3.1 88.0 1.0 C D:GLN139 3.1 82.8 1.0 OD2 D:ASP140 3.4 88.0 1.0 CG D:ASN61 3.5 81.9 1.0 CD D:GLU138 3.5 83.3 1.0 CB D:ASP60 3.6 87.5 1.0 C D:ASP140 3.8 88.0 1.0 ND2 D:ASN61 3.9 81.9 1.0 OE1 D:GLU138 4.0 83.3 1.0 O D:ASP60 4.2 87.5 1.0 C D:ASP60 4.3 87.5 1.0 O D:ASP140 4.3 88.0 1.0 CA D:CA301 4.4 91.2 1.0 CA D:GLN139 4.5 82.8 1.0 CA D:ASP60 4.6 87.5 1.0 N D:SER141 4.7 90.5 1.0 CG D:GLU138 4.7 83.3 1.0 N D:ASN61 4.7 81.9 1.0 CB D:ASN61 4.8 81.9 1.0 N D:GLN139 4.9 82.8 1.0

Calcium binding site 9 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca301 b:88.4 occ:1.00 NE2 E:GLN150 2.3 79.2 1.0 OE1 E:GLU147 2.3 85.5 1.0 OE1 E:GLU138 2.4 82.9 1.0 OD2 E:ASP140 2.5 86.3 1.0 OE2 E:GLU147 2.5 85.5 1.0 OD1 E:ASP140 2.6 86.3 1.0 CD E:GLU147 2.7 85.5 1.0 CG E:ASP140 2.9 86.3 1.0 CD E:GLN150 2.9 79.2 1.0 OE1 E:GLN150 3.0 79.2 1.0 CD E:GLU138 3.1 82.9 1.0 OE2 E:GLU138 3.4 82.9 1.0 CG E:GLN150 4.2 79.2 1.0 CG E:GLU147 4.2 85.5 1.0 CB E:ASP140 4.4 86.3 1.0 CG E:GLU138 4.4 82.9 1.0 CA E:CA302 4.4 98.0 1.0 CB E:GLN150 4.7 79.2 1.0 CB E:GLU147 4.8 85.5 1.0 CB E:GLU138 4.9 82.9 1.0

Calcium binding site 10 out of 10 in the C-Reactive Protein, Pentamer


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of C-Reactive Protein, Pentamer within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca302 b:98.0 occ:1.00 OD1 E:ASP140 2.2 86.3 1.0 OE2 E:GLU138 2.4 82.9 1.0 OD2 E:ASP60 2.4 86.6 1.0 OD1 E:ASN61 2.4 81.3 1.0 O E:GLN139 2.5 83.1 1.0 CG E:ASP60 2.5 86.6 1.0 OD1 E:ASP60 2.5 86.6 1.0 CA E:ASP140 2.5 86.3 1.0 CG E:ASP140 2.5 86.3 1.0 CB E:ASP140 2.8 86.3 1.0 N E:ASP140 3.1 86.3 1.0 C E:GLN139 3.1 83.1 1.0 OD2 E:ASP140 3.4 86.3 1.0 CG E:ASN61 3.5 81.3 1.0 CD E:GLU138 3.5 82.9 1.0 CB E:ASP60 3.6 86.6 1.0 C E:ASP140 3.8 86.3 1.0 ND2 E:ASN61 3.9 81.3 1.0 OE1 E:GLU138 4.0 82.9 1.0 O E:ASP60 4.2 86.6 1.0 C E:ASP60 4.3 86.6 1.0 O E:ASP140 4.3 86.3 1.0 CA E:CA301 4.4 88.4 1.0 CA E:GLN139 4.5 83.1 1.0 CA E:ASP60 4.6 86.6 1.0 N E:SER141 4.7 89.1 1.0 CG E:GLU138 4.7 82.9 1.0 N E:ASN61 4.7 81.3 1.0 CB E:ASN61 4.8 81.3 1.0 N E:GLN139 4.9 83.1 1.0

S.Yadav, K.R.Vinothkumar. Factors Affecting Macromolecule Orientations in Thin Films Formed in Cryo-Em. Acta Crystallogr D Struct V. 80 535 2024BIOL.
ISSN: ISSN 2059-7983
PubMed: 38935342
DOI: 10.1107/S2059798324005229