Calcium in PDB 7pkf: C-Reactive Protein Decamer at pH 5

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Calcium atom in the C-Reactive Protein Decamer at pH 5 (pdb code 7pkf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 20 binding sites of Calcium where determined in the C-Reactive Protein Decamer at pH 5, PDB code: 7pkf:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca301 b:52.1 occ:1.00 OE1 J:GLN150 2.5 43.6 1.0 OD2 J:ASP140 2.7 49.8 1.0 OD1 J:ASP140 2.8 49.8 1.0 OE1 J:GLU138 2.9 44.8 1.0 CG J:ASP140 3.1 49.8 1.0 HB3 J:GLU138 3.4 44.8 1.0 CD J:GLN150 3.4 43.6 1.0 HE22 J:GLN150 3.8 43.6 1.0 HG3 J:GLU147 3.9 49.3 1.0 CD J:GLU138 3.9 44.8 1.0 OE1 J:GLU147 3.9 49.3 1.0 CD J:GLU147 4.0 49.3 1.0 NE2 J:GLN150 4.0 43.6 1.0 HB2 J:GLU147 4.1 49.3 1.0 CB J:GLU138 4.3 44.8 1.0 CA J:CA302 4.3 46.1 1.0 O J:GLU138 4.3 44.8 1.0 HG3 J:GLU138 4.3 44.8 1.0 OE2 J:GLU147 4.3 49.3 1.0 CG J:GLU147 4.4 49.3 1.0 CG J:GLU138 4.4 44.8 1.0 HG3 J:GLN150 4.5 43.6 1.0 CB J:ASP140 4.5 49.8 1.0 CG J:GLN150 4.5 43.6 1.0 O J:ASN145 4.6 49.6 1.0 HB2 J:GLN150 4.7 43.6 1.0 C J:GLU138 4.7 44.8 1.0 HB2 J:ASP140 4.7 49.8 1.0 CB J:GLU147 4.8 49.3 1.0 HE21 J:GLN150 4.8 43.6 1.0 HB2 J:GLU138 4.8 44.8 1.0 OE2 J:GLU138 4.8 44.8 1.0 N J:ASP140 5.0 49.8 1.0 H J:ASP140 5.0 49.8 1.0

Calcium binding site 2 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca302 b:46.1 occ:1.00 OD1 J:ASN61 2.3 46.7 1.0 OD2 J:ASP140 2.4 49.8 1.0 OD2 J:ASP60 2.4 48.6 1.0 OE2 J:GLU138 2.4 44.8 1.0 OE1 J:GLU138 2.5 44.8 1.0 CD J:GLU138 2.8 44.8 1.0 O J:GLN139 2.9 45.1 1.0 HA J:ASP140 3.0 49.8 1.0 CG J:ASN61 3.3 46.7 1.0 CG J:ASP60 3.5 48.6 1.0 CG J:ASP140 3.5 49.8 1.0 C J:GLN139 3.6 45.1 1.0 ND2 J:ASN61 3.6 46.7 1.0 HB2 J:ASP60 3.6 48.6 1.0 CA J:ASP140 3.7 49.8 1.0 N J:ASP140 4.0 49.8 1.0 CB J:ASP60 4.1 48.6 1.0 CB J:ASP140 4.2 49.8 1.0 O J:ASP60 4.2 48.6 1.0 HD23 J:LEU64 4.3 40.8 1.0 CA J:CA301 4.3 52.1 1.0 CG J:GLU138 4.3 44.8 1.0 C J:ASP60 4.4 48.6 1.0 OD1 J:ASP60 4.4 48.6 1.0 OD1 J:ASP140 4.5 49.8 1.0 HD21 J:ASN61 4.5 46.7 1.0 HB3 J:ASP140 4.5 49.8 1.0 H J:GLN139 4.5 45.1 1.0 HG3 J:GLU138 4.6 44.8 1.0 N J:GLN139 4.6 45.1 1.0 CB J:ASN61 4.6 46.7 1.0 HA J:ASN61 4.7 46.7 1.0 N J:ASN61 4.7 46.7 1.0 H J:ASP140 4.7 49.8 1.0 HG2 J:GLU138 4.7 44.8 1.0 CA J:GLN139 4.8 45.1 1.0 HB3 J:ASP60 4.9 48.6 1.0 CA J:ASN61 4.9 46.7 1.0 CA J:ASP60 4.9 48.6 1.0 HB3 J:GLU138 5.0 44.8 1.0 C J:ASP140 5.0 49.8 1.0

Calcium binding site 3 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca301 b:51.1 occ:1.00 OE1 F:GLN150 2.5 41.5 1.0 OD2 F:ASP140 2.5 46.3 1.0 OE1 F:GLU138 2.7 40.7 1.0 OD1 F:ASP140 2.7 46.3 1.0 CG F:ASP140 2.9 46.3 1.0 OE1 F:GLU147 3.3 46.0 1.0 HB3 F:GLU138 3.4 40.7 1.0 CD F:GLU147 3.5 46.0 1.0 CD F:GLN150 3.5 41.5 1.0 CD F:GLU138 3.7 40.7 1.0 OE2 F:GLU147 3.8 46.0 1.0 HE22 F:GLN150 3.8 41.5 1.0 HG3 F:GLU147 3.9 46.0 1.0 CA F:CA302 3.9 47.2 1.0 HB2 F:GLU147 4.0 46.0 1.0 NE2 F:GLN150 4.0 41.5 1.0 CG F:GLU147 4.2 46.0 1.0 CB F:GLU138 4.2 40.7 1.0 HG3 F:GLU138 4.3 40.7 1.0 O F:GLU138 4.3 40.7 1.0 CG F:GLU138 4.3 40.7 1.0 CB F:ASP140 4.4 46.3 1.0 H F:GLU147 4.6 46.0 1.0 CB F:GLU147 4.7 46.0 1.0 OE2 F:GLU138 4.7 40.7 1.0 HB2 F:ASP140 4.7 46.3 1.0 C F:GLU138 4.7 40.7 1.0 CG F:GLN150 4.7 41.5 1.0 HB2 F:GLN150 4.8 41.5 1.0 HG3 F:GLN150 4.8 41.5 1.0 HB2 F:GLU138 4.8 40.7 1.0 O F:ASN145 4.9 46.2 1.0 HE21 F:GLN150 4.9 41.5 1.0 HB3 F:ASP140 5.0 46.3 1.0 N F:ASP140 5.0 46.3 1.0

Calcium binding site 4 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca302 b:47.2 occ:1.00 OD2 F:ASP60 2.3 42.2 1.0 OE2 F:GLU138 2.4 40.7 1.0 OD1 F:ASN61 2.4 40.0 1.0 OE1 F:GLU138 2.4 40.7 1.0 OD2 F:ASP140 2.4 46.3 1.0 CD F:GLU138 2.7 40.7 1.0 O F:GLN139 2.8 41.2 1.0 HA F:ASP140 3.1 46.3 1.0 CG F:ASN61 3.3 40.0 1.0 CG F:ASP60 3.5 42.2 1.0 CG F:ASP140 3.5 46.3 1.0 C F:GLN139 3.6 41.2 1.0 ND2 F:ASN61 3.7 40.0 1.0 CA F:ASP140 3.8 46.3 1.0 HB2 F:ASP60 3.9 42.2 1.0 CA F:CA301 3.9 51.1 1.0 N F:ASP140 4.0 46.3 1.0 CG F:GLU138 4.2 40.7 1.0 HD23 F:LEU64 4.2 34.9 1.0 CB F:ASP140 4.2 46.3 1.0 CB F:ASP60 4.3 42.2 1.0 OD1 F:ASP60 4.4 42.2 1.0 OD1 F:ASP140 4.5 46.3 1.0 HG3 F:GLU138 4.5 40.7 1.0 HD21 F:ASN61 4.5 40.0 1.0 H F:GLN139 4.5 41.2 1.0 N F:GLN139 4.6 41.2 1.0 HB3 F:ASP140 4.6 46.3 1.0 O F:ASP60 4.6 42.2 1.0 HG2 F:GLU138 4.6 40.7 1.0 C F:ASP60 4.6 42.2 1.0 CB F:ASN61 4.7 40.0 1.0 CA F:GLN139 4.7 41.2 1.0 H F:ASP140 4.8 46.3 1.0 N F:ASN61 4.8 40.0 1.0 HA F:ASN61 4.8 40.0 1.0 HB3 F:GLU138 4.8 40.7 1.0 C F:GLU138 5.0 40.7 1.0

Calcium binding site 5 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca301 b:58.4 occ:1.00 OE1 G:GLU138 2.5 54.0 1.0 OD2 G:ASP140 2.5 60.4 1.0 OE1 G:GLN150 2.5 52.8 1.0 OE1 G:GLU147 2.6 57.9 1.0 OD1 G:ASP140 2.7 60.4 1.0 CG G:ASP140 3.0 60.4 1.0 HB3 G:GLU138 3.1 54.0 1.0 CD G:GLU138 3.5 54.0 1.0 CD G:GLN150 3.5 52.8 1.0 CA G:CA302 3.7 62.8 1.0 HE22 G:GLN150 3.8 52.8 1.0 CD G:GLU147 3.8 57.9 1.0 CB G:GLU138 4.0 54.0 1.0 HG3 G:GLU138 4.0 54.0 1.0 O G:GLU138 4.0 54.0 1.0 CG G:GLU138 4.0 54.0 1.0 NE2 G:GLN150 4.0 52.8 1.0 HB2 G:GLU147 4.3 57.9 1.0 C G:GLU138 4.4 54.0 1.0 CB G:ASP140 4.5 60.4 1.0 OE2 G:GLU138 4.5 54.0 1.0 HG3 G:GLU147 4.5 57.9 1.0 HB2 G:GLU138 4.5 54.0 1.0 OE2 G:GLU147 4.6 57.9 1.0 CG G:GLU147 4.7 57.9 1.0 HB2 G:GLN150 4.7 52.8 1.0 H G:GLU147 4.7 57.9 1.0 CG G:GLN150 4.7 52.8 1.0 HG3 G:GLN150 4.8 52.8 1.0 HB2 G:ASP140 4.8 60.4 1.0 CA G:GLU138 4.9 54.0 1.0 HE21 G:GLN150 4.9 52.8 1.0 HB3 G:ASP140 4.9 60.4 1.0 HA G:ASP140 5.0 60.4 1.0 HG2 G:GLU138 5.0 54.0 1.0

Calcium binding site 6 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca302 b:62.8 occ:1.00 OD2 G:ASP60 2.3 58.4 1.0 OD1 G:ASN61 2.3 54.5 1.0 OE1 G:GLU138 2.3 54.0 1.0 OE2 G:GLU138 2.5 54.0 1.0 CD G:GLU138 2.7 54.0 1.0 O G:GLN139 3.0 55.7 1.0 OD1 G:ASP140 3.0 60.4 1.0 HA G:ASP140 3.2 60.4 1.0 CG G:ASN61 3.3 54.5 1.0 CG G:ASP60 3.5 58.4 1.0 ND2 G:ASN61 3.6 54.5 1.0 CG G:ASP140 3.6 60.4 1.0 CA G:CA301 3.7 58.4 1.0 C G:GLN139 3.8 55.7 1.0 CA G:ASP140 4.0 60.4 1.0 HB2 G:ASP60 4.0 58.4 1.0 OD2 G:ASP140 4.2 60.4 1.0 HD23 G:LEU64 4.2 48.0 1.0 CG G:GLU138 4.2 54.0 1.0 N G:ASP140 4.2 60.4 1.0 CB G:ASP140 4.3 60.4 1.0 CB G:ASP60 4.3 58.4 1.0 O G:ASP60 4.4 58.4 1.0 HD21 G:ASN61 4.4 54.5 1.0 OD1 G:ASP60 4.4 58.4 1.0 HG3 G:GLU138 4.5 54.0 1.0 C G:ASP60 4.5 58.4 1.0 H G:GLN139 4.5 55.7 1.0 HB3 G:ASP140 4.6 60.4 1.0 N G:GLN139 4.6 55.7 1.0 CB G:ASN61 4.6 54.5 1.0 HG2 G:GLU138 4.7 54.0 1.0 HA G:ASN61 4.7 54.5 1.0 N G:ASN61 4.8 54.5 1.0 HB3 G:GLU138 4.8 54.0 1.0 CA G:GLN139 4.8 55.7 1.0 C G:GLU138 5.0 54.0 1.0 CA G:ASN61 5.0 54.5 1.0 H G:ASP140 5.0 60.4 1.0

Calcium binding site 7 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca301 b:74.5 occ:1.00 OE1 H:GLU138 2.3 62.1 1.0 OE1 H:GLU147 2.4 66.8 1.0 OD1 H:ASP140 2.4 66.2 1.0 OD2 H:ASP140 2.8 66.2 1.0 OE1 H:GLN150 2.9 60.6 1.0 CG H:ASP140 3.0 66.2 1.0 CD H:GLU138 3.1 62.1 1.0 OE2 H:GLU138 3.5 62.1 1.0 CD H:GLU147 3.6 66.8 1.0 CD H:GLN150 3.7 60.6 1.0 HE22 H:GLN150 3.8 60.6 1.0 NE2 H:GLN150 4.0 60.6 1.0 HB3 H:GLU138 4.1 62.1 1.0 HG3 H:GLU138 4.1 62.1 1.0 CG H:GLU138 4.1 62.1 1.0 HB2 H:GLU147 4.2 66.8 1.0 HG3 H:GLU147 4.2 66.8 1.0 OE2 H:GLU147 4.4 66.8 1.0 CG H:GLU147 4.4 66.8 1.0 CB H:ASP140 4.4 66.2 1.0 CA H:CA302 4.7 67.3 1.0 CB H:GLU138 4.7 62.1 1.0 HB2 H:ASP140 4.7 66.2 1.0 HG3 H:GLN150 4.8 60.6 1.0 HE21 H:GLN150 4.8 60.6 1.0 CG H:GLN150 4.8 60.6 1.0 CB H:GLU147 4.8 66.8 1.0 HB3 H:ASP140 4.9 66.2 1.0 HG2 H:GLU138 4.9 62.1 1.0

Calcium binding site 8 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca302 b:67.3 occ:1.00 OE2 H:GLU138 2.3 62.1 1.0 OD1 H:ASN61 2.4 61.0 1.0 OD2 H:ASP140 2.4 66.2 1.0 HA H:ASP140 2.5 66.2 1.0 OD2 H:ASP60 2.5 63.6 1.0 O H:GLN139 2.6 62.3 1.0 CG H:ASP60 2.7 63.6 1.0 OD1 H:ASP60 3.1 63.6 1.0 HB2 H:ASP60 3.3 63.6 1.0 CG H:ASN61 3.3 61.0 1.0 CA H:ASP140 3.4 66.2 1.0 CD H:GLU138 3.4 62.1 1.0 C H:GLN139 3.4 62.3 1.0 CG H:ASP140 3.4 66.2 1.0 O H:ASP60 3.5 63.6 1.0 CB H:ASP60 3.6 63.6 1.0 ND2 H:ASN61 3.6 61.0 1.0 N H:ASP140 3.8 66.2 1.0 C H:ASP60 3.9 63.6 1.0 CB H:ASP140 3.9 66.2 1.0 OE1 H:GLU138 3.9 62.1 1.0 HB3 H:ASP140 4.2 66.2 1.0 HB3 H:ASP60 4.3 63.6 1.0 CA H:ASP60 4.4 63.6 1.0 OD1 H:ASP140 4.4 66.2 1.0 HD21 H:ASN61 4.5 61.0 1.0 N H:ASN61 4.5 61.0 1.0 HG2 H:GLU138 4.5 62.1 1.0 C H:ASP140 4.5 66.2 1.0 H H:GLN139 4.5 62.3 1.0 H H:ASP140 4.5 66.2 1.0 CG H:GLU138 4.6 62.1 1.0 CB H:ASN61 4.6 61.0 1.0 CA H:GLN139 4.6 62.3 1.0 N H:GLN139 4.7 62.3 1.0 CA H:CA301 4.7 74.5 1.0 HA H:ASN61 4.7 61.0 1.0 HB2 H:ASP140 4.8 66.2 1.0 HG3 H:GLN139 4.8 62.3 1.0 O H:ASP140 4.8 66.2 1.0 CA H:ASN61 4.9 61.0 1.0 HA H:ASP60 4.9 63.6 1.0 HD23 H:LEU64 5.0 55.2 1.0 H H:ASN61 5.0 61.0 1.0 HG H:SER53 5.0 57.9 1.0

Calcium binding site 9 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca301 b:65.3 occ:1.00 OD1 I:ASP140 2.4 67.2 1.0 OE1 I:GLN150 2.5 57.4 1.0 OD2 I:ASP140 3.0 67.2 1.0 CG I:ASP140 3.0 67.2 1.0 HG2 I:GLU138 3.0 60.5 1.0 HG3 I:GLU138 3.1 60.5 1.0 HG3 I:GLU147 3.2 63.2 1.0 CD I:GLU147 3.3 63.2 1.0 CG I:GLU138 3.4 60.5 1.0 OE1 I:GLU147 3.5 63.2 1.0 HB3 I:GLU138 3.5 60.5 1.0 CD I:GLN150 3.5 57.4 1.0 OE2 I:GLU147 3.6 63.2 1.0 HB2 I:GLU147 3.7 63.2 1.0 CG I:GLU147 3.7 63.2 1.0 HE22 I:GLN150 4.0 57.4 1.0 CB I:GLU138 4.0 60.5 1.0 NE2 I:GLN150 4.1 57.4 1.0 CA I:CA302 4.1 72.3 1.0 CB I:GLU147 4.3 63.2 1.0 O I:GLU138 4.3 60.5 1.0 H I:GLU147 4.4 63.2 1.0 CB I:ASP140 4.5 67.2 1.0 HG3 I:GLN150 4.5 57.4 1.0 HB2 I:GLN150 4.5 57.4 1.0 CG I:GLN150 4.5 57.4 1.0 HG2 I:GLU147 4.6 63.2 1.0 HB2 I:ASP140 4.6 67.2 1.0 HB2 I:GLU138 4.7 60.5 1.0 C I:GLU138 4.7 60.5 1.0 CD I:GLU138 4.8 60.5 1.0 O I:ASN145 4.8 67.8 1.0 N I:GLU147 4.9 63.2 1.0 HB3 I:GLU147 4.9 63.2 1.0 HE21 I:GLN150 4.9 57.4 1.0 CB I:GLN150 4.9 57.4 1.0 HB3 I:ASP140 5.0 67.2 1.0 HB3 I:GLN150 5.0 57.4 1.0

Calcium binding site 10 out of 20 in the C-Reactive Protein Decamer at pH 5


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 Decamer at pH 5 within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca302 b:72.3 occ:1.00 OD2 I:ASP140 2.3 67.2 1.0 OD1 I:ASN61 2.4 61.7 1.0 OE2 I:GLU138 2.4 60.5 1.0 OD2 I:ASP60 2.6 65.2 1.0 HG3 I:GLU138 2.9 60.5 1.0 CG I:ASN61 3.2 61.7 1.0 CD I:GLU138 3.3 60.5 1.0 ND2 I:ASN61 3.3 61.7 1.0 CG I:GLU138 3.3 60.5 1.0 HG2 I:GLU138 3.4 60.5 1.0 O I:GLN139 3.4 62.8 1.0 CG I:ASP140 3.5 67.2 1.0 HA I:ASP140 3.6 67.2 1.0 CG I:ASP60 3.9 65.2 1.0 HD23 I:LEU64 3.9 55.8 1.0 C I:GLN139 4.1 62.8 1.0 CA I:CA301 4.1 65.3 1.0 HD21 I:ASN61 4.2 61.7 1.0 O I:ASP60 4.2 65.2 1.0 OD1 I:ASP140 4.3 67.2 1.0 CA I:ASP140 4.3 67.2 1.0 OE1 I:GLU138 4.4 60.5 1.0 H I:GLN139 4.5 62.8 1.0 CB I:ASP140 4.5 67.2 1.0 N I:ASP140 4.6 67.2 1.0 HB2 I:ASP60 4.6 65.2 1.0 CB I:ASN61 4.6 61.7 1.0 OD1 I:ASP60 4.7 65.2 1.0 N I:GLN139 4.7 62.8 1.0 C I:ASP60 4.7 65.2 1.0 HG I:SER53 4.8 58.0 1.0 HA I:ASN61 4.8 61.7 1.0 CD2 I:LEU64 4.8 55.8 1.0 CB I:GLU138 4.8 60.5 1.0 HB3 I:ASP140 4.8 67.2 1.0 CB I:ASP60 4.8 65.2 1.0 HD22 I:LEU64 4.9 55.8 1.0

D.P.Noone, T.T.Velden, T.H.Sharp. Cryo-Electron Microscopy and Biochemical Analysis Offer Insights Into the Effects of Acidic pH, Such As Occur During Acidosis, on the Complement Binding Properties of C-Reactive Protein Front Immunol 2021.
ISSN: ESSN 1664-3224
DOI: 10.3389/FIMMU.2021.757633