Calcium in PDB 8wv5: C-Reactive Protein, Decamer
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Binding sites:
The binding sites of Calcium atom in the C-Reactive Protein, Decamer
(pdb code 8wv5). 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, PDB code: 8wv5:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 1 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca301
b:139.5
occ:1.00
|
CG
|
E:GLU147
|
2.3
|
126.0
|
1.0
|
OE1
|
E:GLU138
|
2.4
|
119.4
|
1.0
|
OE2
|
E:GLU147
|
2.4
|
126.0
|
1.0
|
OD2
|
E:ASP140
|
2.4
|
125.6
|
1.0
|
OE1
|
E:GLN150
|
2.4
|
115.5
|
1.0
|
CD
|
E:GLU147
|
2.6
|
126.0
|
1.0
|
CG
|
E:ASP140
|
3.3
|
125.6
|
1.0
|
CD
|
E:GLN150
|
3.4
|
115.5
|
1.0
|
CD
|
E:GLU138
|
3.5
|
119.4
|
1.0
|
CB
|
E:GLU147
|
3.6
|
126.0
|
1.0
|
OD1
|
E:ASP140
|
3.6
|
125.6
|
1.0
|
OE1
|
E:GLU147
|
3.7
|
126.0
|
1.0
|
OE2
|
E:GLU138
|
3.9
|
119.4
|
1.0
|
NE2
|
E:GLN150
|
4.1
|
115.5
|
1.0
|
O
|
E:GLU138
|
4.4
|
119.4
|
1.0
|
CG
|
E:GLN150
|
4.5
|
115.5
|
1.0
|
CB
|
E:ASP140
|
4.7
|
125.6
|
1.0
|
CG
|
E:GLU138
|
4.7
|
119.4
|
1.0
|
CA
|
E:GLU147
|
4.8
|
126.0
|
1.0
|
CA
|
E:CA302
|
5.0
|
132.2
|
1.0
|
|
Calcium binding site 2 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 2 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca302
b:132.2
occ:1.00
|
ND2
|
E:ASN61
|
2.2
|
127.0
|
1.0
|
OD1
|
E:ASP140
|
2.4
|
125.6
|
1.0
|
OD2
|
E:ASP60
|
2.4
|
129.3
|
1.0
|
OE2
|
E:GLU138
|
2.4
|
119.4
|
1.0
|
OD1
|
E:ASN61
|
2.4
|
127.0
|
1.0
|
CG
|
E:ASN61
|
2.6
|
127.0
|
1.0
|
CG
|
E:ASP60
|
3.4
|
129.3
|
1.0
|
CG
|
E:ASP140
|
3.5
|
125.6
|
1.0
|
CD
|
E:GLU138
|
3.6
|
119.4
|
1.0
|
O
|
E:GLN139
|
3.7
|
121.0
|
1.0
|
CA
|
E:ASP140
|
3.9
|
125.6
|
1.0
|
CB
|
E:ASN61
|
4.1
|
127.0
|
1.0
|
OD1
|
E:ASP60
|
4.1
|
129.3
|
1.0
|
O
|
E:ASP60
|
4.1
|
129.3
|
1.0
|
OE1
|
E:GLU138
|
4.2
|
119.4
|
1.0
|
CB
|
E:ASP140
|
4.3
|
125.6
|
1.0
|
CB
|
E:ASP60
|
4.3
|
129.3
|
1.0
|
OD2
|
E:ASP140
|
4.3
|
125.6
|
1.0
|
C
|
E:ASP60
|
4.4
|
129.3
|
1.0
|
C
|
E:GLN139
|
4.4
|
121.0
|
1.0
|
N
|
E:ASP140
|
4.5
|
125.6
|
1.0
|
N
|
E:ASN61
|
4.7
|
127.0
|
1.0
|
CG
|
E:GLU138
|
4.7
|
119.4
|
1.0
|
CA
|
E:ASN61
|
4.7
|
127.0
|
1.0
|
C
|
E:ASP140
|
4.9
|
125.6
|
1.0
|
CA
|
E:CA301
|
5.0
|
139.5
|
1.0
|
|
Calcium binding site 3 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 3 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca301
b:127.2
occ:1.00
|
OE1
|
A:GLU138
|
2.4
|
111.5
|
1.0
|
OE2
|
A:GLU147
|
2.4
|
117.7
|
1.0
|
OD2
|
A:ASP140
|
2.4
|
114.9
|
1.0
|
OE1
|
A:GLN150
|
2.4
|
101.8
|
1.0
|
CD
|
A:GLU147
|
2.7
|
117.7
|
1.0
|
CG
|
A:GLU147
|
2.9
|
117.7
|
1.0
|
CG
|
A:ASP140
|
3.4
|
114.9
|
1.0
|
CD
|
A:GLN150
|
3.5
|
101.8
|
1.0
|
CD
|
A:GLU138
|
3.5
|
111.5
|
1.0
|
OE1
|
A:GLU147
|
3.5
|
117.7
|
1.0
|
OD1
|
A:ASP140
|
3.8
|
114.9
|
1.0
|
CB
|
A:GLU147
|
3.9
|
117.7
|
1.0
|
NE2
|
A:GLN150
|
4.0
|
101.8
|
1.0
|
OE2
|
A:GLU138
|
4.1
|
111.5
|
1.0
|
CG
|
A:GLU138
|
4.5
|
111.5
|
1.0
|
O
|
A:GLU138
|
4.5
|
111.5
|
1.0
|
CG
|
A:GLN150
|
4.6
|
101.8
|
1.0
|
CB
|
A:ASP140
|
4.7
|
114.9
|
1.0
|
CB
|
A:GLU138
|
4.8
|
111.5
|
1.0
|
|
Calcium binding site 4 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 4 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca302
b:132.5
occ:1.00
|
ND2
|
A:ASN61
|
2.3
|
112.5
|
1.0
|
OD1
|
A:ASP140
|
2.4
|
114.9
|
1.0
|
OD1
|
A:ASN61
|
2.4
|
112.5
|
1.0
|
OE2
|
A:GLU138
|
2.4
|
111.5
|
1.0
|
OD2
|
A:ASP60
|
2.5
|
118.6
|
1.0
|
CG
|
A:ASP60
|
2.5
|
118.6
|
1.0
|
CG
|
A:ASN61
|
2.6
|
112.5
|
1.0
|
OD1
|
A:ASP60
|
2.7
|
118.6
|
1.0
|
CB
|
A:ASP60
|
3.3
|
118.6
|
1.0
|
CG
|
A:ASP140
|
3.5
|
114.9
|
1.0
|
CD
|
A:GLU138
|
3.6
|
111.5
|
1.0
|
CA
|
A:ASP140
|
3.8
|
114.9
|
1.0
|
O
|
A:GLN139
|
3.9
|
110.7
|
1.0
|
CB
|
A:ASN61
|
4.0
|
112.5
|
1.0
|
C
|
A:ASP60
|
4.1
|
118.6
|
1.0
|
OE1
|
A:GLU138
|
4.2
|
111.5
|
1.0
|
CB
|
A:ASP140
|
4.2
|
114.9
|
1.0
|
N
|
A:ASN61
|
4.3
|
112.5
|
1.0
|
O
|
A:ASP60
|
4.3
|
118.6
|
1.0
|
CA
|
A:ASP60
|
4.3
|
118.6
|
1.0
|
OD2
|
A:ASP140
|
4.5
|
114.9
|
1.0
|
C
|
A:GLN139
|
4.5
|
110.7
|
1.0
|
N
|
A:ASP140
|
4.5
|
114.9
|
1.0
|
CA
|
A:ASN61
|
4.6
|
112.5
|
1.0
|
C
|
A:ASP140
|
4.8
|
114.9
|
1.0
|
CG
|
A:GLU138
|
4.8
|
111.5
|
1.0
|
|
Calcium binding site 5 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 5 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca301
b:137.2
occ:1.00
|
OE1
|
B:GLU138
|
2.4
|
119.9
|
1.0
|
OE2
|
B:GLU147
|
2.4
|
127.1
|
1.0
|
OD2
|
B:ASP140
|
2.4
|
125.9
|
1.0
|
OE1
|
B:GLN150
|
2.4
|
119.1
|
1.0
|
CD
|
B:GLU147
|
2.6
|
127.1
|
1.0
|
CG
|
B:GLU147
|
2.7
|
127.1
|
1.0
|
CG
|
B:ASP140
|
3.3
|
125.9
|
1.0
|
CD
|
B:GLN150
|
3.4
|
119.1
|
1.0
|
CD
|
B:GLU138
|
3.5
|
119.9
|
1.0
|
OE1
|
B:GLU147
|
3.5
|
127.1
|
1.0
|
OD1
|
B:ASP140
|
3.6
|
125.9
|
1.0
|
CB
|
B:GLU147
|
3.6
|
127.1
|
1.0
|
OE2
|
B:GLU138
|
3.9
|
119.9
|
1.0
|
NE2
|
B:GLN150
|
4.0
|
119.1
|
1.0
|
O
|
B:GLU138
|
4.3
|
119.9
|
1.0
|
CG
|
B:GLN150
|
4.5
|
119.1
|
1.0
|
CB
|
B:ASP140
|
4.6
|
125.9
|
1.0
|
CG
|
B:GLU138
|
4.7
|
119.9
|
1.0
|
CA
|
B:CA302
|
4.8
|
133.4
|
1.0
|
CA
|
B:GLU147
|
4.9
|
127.1
|
1.0
|
|
Calcium binding site 6 out
of 20 in 8wv5
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Calcium Binding Sites List in 8wv5
Calcium binding site 6 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca302
b:133.4
occ:1.00
|
ND2
|
B:ASN61
|
2.3
|
123.5
|
1.0
|
OD1
|
B:ASP140
|
2.4
|
125.9
|
1.0
|
OD2
|
B:ASP60
|
2.4
|
127.1
|
1.0
|
OD1
|
B:ASN61
|
2.4
|
123.5
|
1.0
|
OE2
|
B:GLU138
|
2.4
|
119.9
|
1.0
|
CG
|
B:ASN61
|
2.6
|
123.5
|
1.0
|
CG
|
B:ASP60
|
3.4
|
127.1
|
1.0
|
CG
|
B:ASP140
|
3.5
|
125.9
|
1.0
|
CD
|
B:GLU138
|
3.6
|
119.9
|
1.0
|
O
|
B:GLN139
|
3.7
|
119.8
|
1.0
|
CA
|
B:ASP140
|
3.9
|
125.9
|
1.0
|
CB
|
B:ASN61
|
4.1
|
123.5
|
1.0
|
OD1
|
B:ASP60
|
4.1
|
127.1
|
1.0
|
OE1
|
B:GLU138
|
4.1
|
119.9
|
1.0
|
O
|
B:ASP60
|
4.1
|
127.1
|
1.0
|
CB
|
B:ASP140
|
4.3
|
125.9
|
1.0
|
CB
|
B:ASP60
|
4.3
|
127.1
|
1.0
|
OD2
|
B:ASP140
|
4.3
|
125.9
|
1.0
|
C
|
B:ASP60
|
4.4
|
127.1
|
1.0
|
C
|
B:GLN139
|
4.5
|
119.8
|
1.0
|
N
|
B:ASP140
|
4.5
|
125.9
|
1.0
|
N
|
B:ASN61
|
4.7
|
123.5
|
1.0
|
CG
|
B:GLU138
|
4.7
|
119.9
|
1.0
|
CA
|
B:ASN61
|
4.7
|
123.5
|
1.0
|
CA
|
B:CA301
|
4.8
|
137.2
|
1.0
|
C
|
B:ASP140
|
5.0
|
125.9
|
1.0
|
|
Calcium binding site 7 out
of 20 in 8wv5
Go back to
Calcium Binding Sites List in 8wv5
Calcium binding site 7 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca301
b:146.5
occ:1.00
|
OE1
|
C:GLU138
|
2.4
|
136.7
|
1.0
|
OE2
|
C:GLU147
|
2.4
|
145.2
|
1.0
|
OD2
|
C:ASP140
|
2.4
|
141.0
|
1.0
|
OE1
|
C:GLN150
|
2.4
|
131.7
|
1.0
|
CD
|
C:GLU147
|
2.7
|
145.2
|
1.0
|
CG
|
C:GLU147
|
2.8
|
145.2
|
1.0
|
CG
|
C:ASP140
|
3.3
|
141.0
|
1.0
|
CD
|
C:GLN150
|
3.4
|
131.7
|
1.0
|
CD
|
C:GLU138
|
3.5
|
136.7
|
1.0
|
OD1
|
C:ASP140
|
3.5
|
141.0
|
1.0
|
OE1
|
C:GLU147
|
3.6
|
145.2
|
1.0
|
CB
|
C:GLU147
|
3.8
|
145.2
|
1.0
|
OE2
|
C:GLU138
|
3.9
|
136.7
|
1.0
|
NE2
|
C:GLN150
|
4.0
|
131.7
|
1.0
|
O
|
C:GLU138
|
4.5
|
136.7
|
1.0
|
CG
|
C:GLN150
|
4.6
|
131.7
|
1.0
|
CB
|
C:ASP140
|
4.6
|
141.0
|
1.0
|
CG
|
C:GLU138
|
4.7
|
136.7
|
1.0
|
CA
|
C:CA302
|
4.9
|
144.3
|
1.0
|
CB
|
C:GLU138
|
5.0
|
136.7
|
1.0
|
|
Calcium binding site 8 out
of 20 in 8wv5
Go back to
Calcium Binding Sites List in 8wv5
Calcium binding site 8 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca302
b:144.3
occ:1.00
|
ND2
|
C:ASN61
|
2.3
|
136.9
|
1.0
|
OD1
|
C:ASP140
|
2.4
|
141.0
|
1.0
|
OD2
|
C:ASP60
|
2.4
|
141.4
|
1.0
|
OD1
|
C:ASN61
|
2.4
|
136.9
|
1.0
|
OE2
|
C:GLU138
|
2.4
|
136.7
|
1.0
|
CG
|
C:ASN61
|
2.6
|
136.9
|
1.0
|
CG
|
C:ASP60
|
3.4
|
141.4
|
1.0
|
CG
|
C:ASP140
|
3.5
|
141.0
|
1.0
|
CD
|
C:GLU138
|
3.6
|
136.7
|
1.0
|
O
|
C:GLN139
|
3.6
|
137.0
|
1.0
|
CA
|
C:ASP140
|
3.8
|
141.0
|
1.0
|
CB
|
C:ASN61
|
4.0
|
136.9
|
1.0
|
OD1
|
C:ASP60
|
4.1
|
141.4
|
1.0
|
OE1
|
C:GLU138
|
4.1
|
136.7
|
1.0
|
O
|
C:ASP60
|
4.2
|
141.4
|
1.0
|
CB
|
C:ASP140
|
4.2
|
141.0
|
1.0
|
CB
|
C:ASP60
|
4.3
|
141.4
|
1.0
|
OD2
|
C:ASP140
|
4.3
|
141.0
|
1.0
|
C
|
C:GLN139
|
4.3
|
137.0
|
1.0
|
C
|
C:ASP60
|
4.4
|
141.4
|
1.0
|
N
|
C:ASP140
|
4.4
|
141.0
|
1.0
|
N
|
C:ASN61
|
4.7
|
136.9
|
1.0
|
CA
|
C:ASN61
|
4.7
|
136.9
|
1.0
|
CG
|
C:GLU138
|
4.7
|
136.7
|
1.0
|
C
|
C:ASP140
|
4.8
|
141.0
|
1.0
|
CA
|
C:CA301
|
4.9
|
146.5
|
1.0
|
|
Calcium binding site 9 out
of 20 in 8wv5
Go back to
Calcium Binding Sites List in 8wv5
Calcium binding site 9 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca301
b:141.0
occ:1.00
|
OE1
|
D:GLU138
|
2.4
|
139.5
|
1.0
|
OE2
|
D:GLU147
|
2.4
|
141.1
|
1.0
|
OD2
|
D:ASP140
|
2.4
|
141.3
|
1.0
|
OE1
|
D:GLN150
|
2.4
|
131.4
|
1.0
|
CD
|
D:GLU147
|
2.6
|
141.1
|
1.0
|
CG
|
D:GLU147
|
2.8
|
141.1
|
1.0
|
CG
|
D:ASP140
|
3.3
|
141.3
|
1.0
|
CD
|
D:GLN150
|
3.4
|
131.4
|
1.0
|
CD
|
D:GLU138
|
3.5
|
139.5
|
1.0
|
OE1
|
D:GLU147
|
3.5
|
141.1
|
1.0
|
OD1
|
D:ASP140
|
3.6
|
141.3
|
1.0
|
CB
|
D:GLU147
|
3.8
|
141.1
|
1.0
|
OE2
|
D:GLU138
|
3.9
|
139.5
|
1.0
|
NE2
|
D:GLN150
|
4.1
|
131.4
|
1.0
|
O
|
D:GLU138
|
4.4
|
139.5
|
1.0
|
CG
|
D:GLN150
|
4.6
|
131.4
|
1.0
|
CB
|
D:ASP140
|
4.6
|
141.3
|
1.0
|
CG
|
D:GLU138
|
4.7
|
139.5
|
1.0
|
CA
|
D:CA302
|
4.9
|
146.8
|
1.0
|
CB
|
D:GLU138
|
5.0
|
139.5
|
1.0
|
|
Calcium binding site 10 out
of 20 in 8wv5
Go back to
Calcium Binding Sites List in 8wv5
Calcium binding site 10 out
of 20 in the C-Reactive Protein, Decamer
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 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca302
b:146.8
occ:1.00
|
ND2
|
D:ASN61
|
2.3
|
143.5
|
1.0
|
OD1
|
D:ASP140
|
2.4
|
141.3
|
1.0
|
OD1
|
D:ASN61
|
2.4
|
143.5
|
1.0
|
OD2
|
D:ASP60
|
2.4
|
146.3
|
1.0
|
OE2
|
D:GLU138
|
2.4
|
139.5
|
1.0
|
CG
|
D:ASN61
|
2.6
|
143.5
|
1.0
|
CG
|
D:ASP60
|
3.4
|
146.3
|
1.0
|
CG
|
D:ASP140
|
3.5
|
141.3
|
1.0
|
CD
|
D:GLU138
|
3.6
|
139.5
|
1.0
|
O
|
D:GLN139
|
3.9
|
136.4
|
1.0
|
OD1
|
D:ASP60
|
4.1
|
146.3
|
1.0
|
CA
|
D:ASP140
|
4.1
|
141.3
|
1.0
|
CB
|
D:ASN61
|
4.1
|
143.5
|
1.0
|
OE1
|
D:GLU138
|
4.2
|
139.5
|
1.0
|
CB
|
D:ASP140
|
4.4
|
141.3
|
1.0
|
OD2
|
D:ASP140
|
4.4
|
141.3
|
1.0
|
O
|
D:ASP60
|
4.4
|
146.3
|
1.0
|
CB
|
D:ASP60
|
4.5
|
146.3
|
1.0
|
C
|
D:ASP60
|
4.6
|
146.3
|
1.0
|
C
|
D:GLN139
|
4.6
|
136.4
|
1.0
|
N
|
D:ASP140
|
4.7
|
141.3
|
1.0
|
CG
|
D:GLU138
|
4.7
|
139.5
|
1.0
|
N
|
D:ASN61
|
4.8
|
143.5
|
1.0
|
CA
|
D:ASN61
|
4.9
|
143.5
|
1.0
|
CA
|
D:CA301
|
4.9
|
141.0
|
1.0
|
CD1
|
D:LEU64
|
4.9
|
123.9
|
1.0
|
|
Reference:
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
Page generated: Sat Sep 28 09:20:27 2024
|