Calcium in PDB 2w08: The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
Protein crystallography data
The structure of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine, PDB code: 2w08
was solved by
S.E.Kolstoe,
M.B.Pepys,
S.P.Wood,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
47.48 /
1.70
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
94.769,
69.435,
102.063,
90.00,
97.05,
90.00
|
|
R / Rfree (%)
|
15.4 /
17.6
|
Calcium Binding Sites:
The binding sites of Calcium atom in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
(pdb code 2w08). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the
The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine, PDB code: 2w08:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 1 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca205
b:15.1
occ:1.00
|
O1P
|
A:TPO500
|
2.4
|
15.9
|
1.0
|
|
OD1
|
A:ASN59
|
2.4
|
15.0
|
1.0
|
|
O
|
A:GLN137
|
2.5
|
15.2
|
1.0
|
|
OD1
|
A:ASP138
|
2.5
|
16.9
|
1.0
|
|
OE2
|
A:GLU136
|
2.5
|
11.5
|
1.0
|
|
OD1
|
A:ASP58
|
2.5
|
18.7
|
1.0
|
|
OE1
|
A:GLU136
|
2.7
|
16.7
|
1.0
|
|
OD2
|
A:ASP58
|
2.7
|
17.2
|
1.0
|
|
CD
|
A:GLU136
|
2.9
|
17.1
|
1.0
|
|
CG
|
A:ASP58
|
2.9
|
18.5
|
1.0
|
|
CG
|
A:ASN59
|
3.4
|
13.7
|
1.0
|
|
C
|
A:GLN137
|
3.5
|
18.5
|
1.0
|
|
CG
|
A:ASP138
|
3.7
|
18.1
|
1.0
|
|
ND2
|
A:ASN59
|
3.7
|
11.6
|
1.0
|
|
P
|
A:TPO500
|
3.7
|
18.8
|
1.0
|
|
CA
|
A:ASP138
|
3.8
|
19.3
|
1.0
|
|
CA
|
A:CA206
|
3.9
|
15.1
|
1.0
|
|
O2P
|
A:TPO500
|
4.1
|
16.1
|
1.0
|
|
N
|
A:ASP138
|
4.1
|
16.2
|
1.0
|
|
O
|
A:HOH2085
|
4.1
|
13.1
|
1.0
|
|
O
|
A:HOH2101
|
4.3
|
21.8
|
1.0
|
|
CB
|
A:ASP138
|
4.4
|
14.3
|
1.0
|
|
N
|
A:ASN59
|
4.4
|
15.6
|
1.0
|
|
CG
|
A:GLU136
|
4.4
|
12.3
|
1.0
|
|
CB
|
A:ASP58
|
4.4
|
20.5
|
1.0
|
|
O3P
|
A:TPO500
|
4.4
|
19.7
|
1.0
|
|
OD2
|
A:ASP138
|
4.6
|
16.3
|
1.0
|
|
CB
|
A:ASN59
|
4.7
|
12.2
|
1.0
|
|
CA
|
A:GLN137
|
4.7
|
13.9
|
1.0
|
|
N
|
A:GLN137
|
4.7
|
11.2
|
1.0
|
|
ND2
|
A:ASN53
|
4.8
|
15.3
|
1.0
|
|
OG1
|
A:TPO500
|
4.9
|
15.7
|
1.0
|
|
CA
|
A:ASN59
|
4.9
|
15.2
|
1.0
|
|
O
|
A:HOH2102
|
5.0
|
39.6
|
1.0
|
|
Calcium binding site 2 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 2 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca206
b:15.1
occ:1.00
|
O2P
|
A:TPO500
|
2.4
|
16.1
|
1.0
|
|
OE1
|
A:GLU136
|
2.4
|
16.7
|
1.0
|
|
OE1
|
A:GLN148
|
2.4
|
15.5
|
1.0
|
|
O
|
A:HOH2192
|
2.5
|
18.6
|
1.0
|
|
O
|
A:HOH2184
|
2.5
|
15.5
|
1.0
|
|
OD2
|
A:ASP138
|
2.6
|
16.3
|
1.0
|
|
OD1
|
A:ASP138
|
2.6
|
16.9
|
1.0
|
|
CG
|
A:ASP138
|
2.9
|
18.1
|
1.0
|
|
CD
|
A:GLN148
|
3.3
|
14.7
|
1.0
|
|
CD
|
A:GLU136
|
3.6
|
17.1
|
1.0
|
|
P
|
A:TPO500
|
3.6
|
18.8
|
1.0
|
|
NE2
|
A:GLN148
|
3.6
|
21.5
|
1.0
|
|
O1P
|
A:TPO500
|
3.9
|
15.9
|
1.0
|
|
CA
|
A:CA205
|
3.9
|
15.1
|
1.0
|
|
CB
|
A:ASP138
|
4.2
|
14.3
|
1.0
|
|
CB
|
A:ASP145
|
4.3
|
16.1
|
1.0
|
|
O
|
A:HOH2260
|
4.3
|
32.2
|
1.0
|
|
CG
|
A:GLU136
|
4.3
|
12.3
|
1.0
|
|
CB
|
A:GLU136
|
4.3
|
10.7
|
1.0
|
|
O3P
|
A:TPO500
|
4.4
|
19.7
|
1.0
|
|
O
|
A:GLU136
|
4.4
|
16.2
|
1.0
|
|
OE2
|
A:GLU136
|
4.5
|
11.5
|
1.0
|
|
OD2
|
A:ASP145
|
4.5
|
19.7
|
1.0
|
|
O
|
A:GLN137
|
4.6
|
15.2
|
1.0
|
|
CG
|
A:GLN148
|
4.7
|
13.2
|
1.0
|
|
O
|
A:HOH2186
|
4.8
|
29.3
|
1.0
|
|
C
|
A:GLU136
|
4.9
|
14.8
|
1.0
|
|
CA
|
A:ASP138
|
4.9
|
19.3
|
1.0
|
|
N
|
A:ASP138
|
4.9
|
16.2
|
1.0
|
|
C
|
A:GLN137
|
4.9
|
18.5
|
1.0
|
|
O
|
A:LYS143
|
4.9
|
19.7
|
1.0
|
|
OG1
|
A:TPO500
|
4.9
|
15.7
|
1.0
|
|
CG
|
A:ASP145
|
5.0
|
20.5
|
1.0
|
|
Calcium binding site 3 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 3 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca205
b:8.8
occ:1.00
|
O2P
|
B:TPO500
|
2.3
|
13.1
|
1.0
|
|
OE1
|
B:GLU136
|
2.4
|
10.2
|
1.0
|
|
OE1
|
B:GLN148
|
2.4
|
9.8
|
1.0
|
|
O
|
B:HOH2200
|
2.4
|
11.0
|
1.0
|
|
O
|
B:HOH2186
|
2.5
|
11.5
|
1.0
|
|
OD1
|
B:ASP138
|
2.6
|
8.8
|
1.0
|
|
OD2
|
B:ASP138
|
2.6
|
8.4
|
1.0
|
|
CG
|
B:ASP138
|
2.8
|
10.1
|
1.0
|
|
CD
|
B:GLN148
|
3.4
|
9.5
|
1.0
|
|
P
|
B:TPO500
|
3.5
|
14.7
|
1.0
|
|
CD
|
B:GLU136
|
3.6
|
8.2
|
1.0
|
|
NE2
|
B:GLN148
|
3.7
|
16.8
|
1.0
|
|
O1P
|
B:TPO500
|
3.8
|
11.3
|
1.0
|
|
CA
|
B:CA206
|
3.9
|
8.3
|
1.0
|
|
CB
|
B:ASP138
|
4.3
|
9.7
|
1.0
|
|
O
|
B:HOH2267
|
4.3
|
35.5
|
1.0
|
|
CB
|
B:ASP145
|
4.3
|
8.9
|
1.0
|
|
O3P
|
B:TPO500
|
4.3
|
18.2
|
1.0
|
|
CG
|
B:GLU136
|
4.3
|
9.4
|
1.0
|
|
O
|
B:GLU136
|
4.3
|
8.0
|
1.0
|
|
CB
|
B:GLU136
|
4.3
|
7.7
|
1.0
|
|
OE2
|
B:GLU136
|
4.4
|
8.2
|
1.0
|
|
OD2
|
B:ASP145
|
4.6
|
12.6
|
1.0
|
|
O
|
B:GLN137
|
4.6
|
7.7
|
1.0
|
|
CG
|
B:GLN148
|
4.8
|
10.0
|
1.0
|
|
C
|
B:GLN137
|
4.8
|
8.6
|
1.0
|
|
OG1
|
B:TPO500
|
4.8
|
14.8
|
1.0
|
|
C
|
B:GLU136
|
4.8
|
8.0
|
1.0
|
|
O
|
B:LYS143
|
4.8
|
10.8
|
1.0
|
|
N
|
B:ASP138
|
4.9
|
6.7
|
1.0
|
|
CA
|
B:ASP138
|
4.9
|
9.7
|
1.0
|
|
CG
|
B:ASP145
|
5.0
|
11.7
|
1.0
|
|
Calcium binding site 4 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 4 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca206
b:8.3
occ:1.00
|
O1P
|
B:TPO500
|
2.3
|
11.3
|
1.0
|
|
OD1
|
B:ASP138
|
2.4
|
8.8
|
1.0
|
|
OD1
|
B:ASN59
|
2.4
|
7.4
|
1.0
|
|
O
|
B:GLN137
|
2.4
|
7.7
|
1.0
|
|
OE2
|
B:GLU136
|
2.5
|
8.2
|
1.0
|
|
OD1
|
B:ASP58
|
2.5
|
10.7
|
1.0
|
|
OE1
|
B:GLU136
|
2.6
|
10.2
|
1.0
|
|
OD2
|
B:ASP58
|
2.7
|
11.1
|
1.0
|
|
CD
|
B:GLU136
|
2.9
|
8.2
|
1.0
|
|
CG
|
B:ASP58
|
3.0
|
11.8
|
1.0
|
|
CG
|
B:ASN59
|
3.4
|
7.3
|
1.0
|
|
C
|
B:GLN137
|
3.5
|
8.6
|
1.0
|
|
CG
|
B:ASP138
|
3.6
|
10.1
|
1.0
|
|
P
|
B:TPO500
|
3.7
|
14.7
|
1.0
|
|
ND2
|
B:ASN59
|
3.7
|
10.4
|
1.0
|
|
CA
|
B:ASP138
|
3.8
|
9.7
|
1.0
|
|
CA
|
B:CA205
|
3.9
|
8.8
|
1.0
|
|
O2P
|
B:TPO500
|
4.0
|
13.1
|
1.0
|
|
N
|
B:ASP138
|
4.1
|
6.7
|
1.0
|
|
O
|
B:HOH2082
|
4.2
|
9.0
|
1.0
|
|
CB
|
B:ASP138
|
4.3
|
9.7
|
1.0
|
|
O
|
B:HOH2268
|
4.3
|
35.1
|
1.0
|
|
O3P
|
B:TPO500
|
4.4
|
18.2
|
1.0
|
|
N
|
B:ASN59
|
4.4
|
7.4
|
1.0
|
|
CG
|
B:GLU136
|
4.4
|
9.4
|
1.0
|
|
CB
|
B:ASP58
|
4.5
|
10.8
|
1.0
|
|
OD2
|
B:ASP138
|
4.5
|
8.4
|
1.0
|
|
CB
|
B:ASN59
|
4.7
|
9.7
|
1.0
|
|
CA
|
B:GLN137
|
4.7
|
7.9
|
1.0
|
|
N
|
B:GLN137
|
4.8
|
7.1
|
1.0
|
|
ND2
|
B:ASN53
|
4.8
|
9.2
|
1.0
|
|
OG1
|
B:TPO500
|
4.9
|
14.8
|
1.0
|
|
CA
|
B:ASN59
|
4.9
|
8.2
|
1.0
|
|
OD1
|
B:ASN53
|
5.0
|
10.3
|
1.0
|
|
Calcium binding site 5 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 5 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca205
b:9.6
occ:1.00
|
O1P
|
C:TPO500
|
2.3
|
12.7
|
1.0
|
|
OD1
|
C:ASN59
|
2.4
|
10.1
|
1.0
|
|
OD1
|
C:ASP138
|
2.4
|
12.9
|
1.0
|
|
O
|
C:GLN137
|
2.4
|
10.1
|
1.0
|
|
OE2
|
C:GLU136
|
2.5
|
10.3
|
1.0
|
|
OD1
|
C:ASP58
|
2.5
|
12.4
|
1.0
|
|
OE1
|
C:GLU136
|
2.7
|
9.8
|
1.0
|
|
OD2
|
C:ASP58
|
2.8
|
13.9
|
1.0
|
|
CD
|
C:GLU136
|
2.9
|
11.6
|
1.0
|
|
CG
|
C:ASP58
|
3.0
|
12.5
|
1.0
|
|
CG
|
C:ASN59
|
3.4
|
9.5
|
1.0
|
|
C
|
C:GLN137
|
3.5
|
10.0
|
1.0
|
|
CG
|
C:ASP138
|
3.6
|
10.0
|
1.0
|
|
P
|
C:TPO500
|
3.7
|
15.8
|
1.0
|
|
ND2
|
C:ASN59
|
3.8
|
10.8
|
1.0
|
|
CA
|
C:ASP138
|
3.9
|
11.6
|
1.0
|
|
CA
|
C:CA206
|
3.9
|
12.1
|
1.0
|
|
O2P
|
C:TPO500
|
4.0
|
13.4
|
1.0
|
|
N
|
C:ASP138
|
4.1
|
11.2
|
1.0
|
|
O
|
C:HOH2085
|
4.2
|
11.4
|
1.0
|
|
O
|
C:HOH2117
|
4.3
|
24.6
|
1.0
|
|
CB
|
C:ASP138
|
4.3
|
11.5
|
1.0
|
|
N
|
C:ASN59
|
4.4
|
8.1
|
1.0
|
|
CG
|
C:GLU136
|
4.4
|
8.2
|
1.0
|
|
O3P
|
C:TPO500
|
4.5
|
16.6
|
1.0
|
|
CB
|
C:ASP58
|
4.5
|
14.1
|
1.0
|
|
OD2
|
C:ASP138
|
4.6
|
12.2
|
1.0
|
|
CB
|
C:ASN59
|
4.7
|
13.8
|
1.0
|
|
CA
|
C:GLN137
|
4.8
|
10.0
|
1.0
|
|
N
|
C:GLN137
|
4.8
|
7.3
|
1.0
|
|
ND2
|
C:ASN53
|
4.8
|
11.2
|
1.0
|
|
OG1
|
C:TPO500
|
4.8
|
16.3
|
1.0
|
|
CA
|
C:ASN59
|
4.9
|
10.9
|
1.0
|
|
O
|
C:HOH2190
|
4.9
|
9.7
|
1.0
|
|
Calcium binding site 6 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 6 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca206
b:12.1
occ:1.00
|
OE1
|
C:GLU136
|
2.4
|
9.8
|
1.0
|
|
OE1
|
C:GLN148
|
2.4
|
11.1
|
1.0
|
|
O2P
|
C:TPO500
|
2.4
|
13.4
|
1.0
|
|
O
|
C:HOH2190
|
2.4
|
9.7
|
1.0
|
|
O
|
C:HOH2199
|
2.4
|
15.2
|
1.0
|
|
OD2
|
C:ASP138
|
2.6
|
12.2
|
1.0
|
|
OD1
|
C:ASP138
|
2.7
|
12.9
|
1.0
|
|
CG
|
C:ASP138
|
2.9
|
10.0
|
1.0
|
|
CD
|
C:GLN148
|
3.3
|
11.5
|
1.0
|
|
P
|
C:TPO500
|
3.6
|
15.8
|
1.0
|
|
CD
|
C:GLU136
|
3.6
|
11.6
|
1.0
|
|
NE2
|
C:GLN148
|
3.6
|
19.2
|
1.0
|
|
O1P
|
C:TPO500
|
3.8
|
12.7
|
1.0
|
|
CA
|
C:CA205
|
3.9
|
9.6
|
1.0
|
|
O
|
C:HOH2272
|
4.0
|
32.8
|
1.0
|
|
CB
|
C:ASP138
|
4.2
|
11.5
|
1.0
|
|
O
|
C:HOH2271
|
4.2
|
26.4
|
1.0
|
|
CB
|
C:ASP145
|
4.3
|
11.2
|
1.0
|
|
O
|
C:GLU136
|
4.3
|
10.0
|
1.0
|
|
O3P
|
C:TPO500
|
4.3
|
16.6
|
1.0
|
|
CG
|
C:GLU136
|
4.3
|
8.2
|
1.0
|
|
CB
|
C:GLU136
|
4.4
|
10.7
|
1.0
|
|
OE2
|
C:GLU136
|
4.5
|
10.3
|
1.0
|
|
O
|
C:GLN137
|
4.6
|
10.1
|
1.0
|
|
OD2
|
C:ASP145
|
4.6
|
18.1
|
1.0
|
|
CG
|
C:GLN148
|
4.7
|
11.0
|
1.0
|
|
C
|
C:GLN137
|
4.8
|
10.0
|
1.0
|
|
N
|
C:ASP138
|
4.8
|
11.2
|
1.0
|
|
C
|
C:GLU136
|
4.8
|
8.9
|
1.0
|
|
O
|
C:LYS143
|
4.8
|
14.0
|
1.0
|
|
O
|
C:HOH2192
|
4.8
|
22.8
|
1.0
|
|
OG1
|
C:TPO500
|
4.9
|
16.3
|
1.0
|
|
CA
|
C:ASP138
|
4.9
|
11.6
|
1.0
|
|
CG
|
C:ASP145
|
5.0
|
17.9
|
1.0
|
|
Calcium binding site 7 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 7 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca205
b:11.5
occ:1.00
|
O2P
|
D:TPO500
|
2.4
|
19.3
|
1.0
|
|
OE1
|
D:GLU136
|
2.4
|
11.1
|
1.0
|
|
OE1
|
D:GLN148
|
2.4
|
14.0
|
1.0
|
|
O
|
D:HOH2176
|
2.4
|
13.1
|
1.0
|
|
O
|
D:HOH2190
|
2.5
|
14.8
|
1.0
|
|
OD2
|
D:ASP138
|
2.6
|
12.5
|
1.0
|
|
OD1
|
D:ASP138
|
2.6
|
10.9
|
1.0
|
|
CG
|
D:ASP138
|
2.9
|
13.7
|
1.0
|
|
CD
|
D:GLN148
|
3.4
|
11.1
|
1.0
|
|
P
|
D:TPO500
|
3.5
|
28.4
|
1.0
|
|
CD
|
D:GLU136
|
3.6
|
11.3
|
1.0
|
|
NE2
|
D:GLN148
|
3.7
|
18.5
|
1.0
|
|
O1P
|
D:TPO500
|
3.8
|
13.6
|
1.0
|
|
CA
|
D:CA206
|
3.9
|
10.0
|
1.0
|
|
O
|
D:HOH2267
|
4.0
|
27.6
|
1.0
|
|
O3P
|
D:TPO500
|
4.2
|
33.7
|
1.0
|
|
CB
|
D:ASP138
|
4.3
|
10.3
|
1.0
|
|
CB
|
D:ASP145
|
4.3
|
12.2
|
1.0
|
|
CB
|
D:GLU136
|
4.3
|
8.1
|
1.0
|
|
CG
|
D:GLU136
|
4.3
|
10.1
|
1.0
|
|
O
|
D:GLU136
|
4.4
|
10.8
|
1.0
|
|
OE2
|
D:GLU136
|
4.5
|
9.9
|
1.0
|
|
O
|
D:GLN137
|
4.6
|
8.6
|
1.0
|
|
OD2
|
D:ASP145
|
4.6
|
17.1
|
1.0
|
|
O
|
D:HOH2178
|
4.7
|
30.6
|
1.0
|
|
CG
|
D:GLN148
|
4.8
|
9.7
|
1.0
|
|
C
|
D:GLN137
|
4.8
|
8.8
|
1.0
|
|
C
|
D:GLU136
|
4.8
|
8.9
|
1.0
|
|
N
|
D:ASP138
|
4.8
|
9.1
|
1.0
|
|
O
|
D:LYS143
|
4.9
|
13.0
|
1.0
|
|
OG1
|
D:TPO500
|
4.9
|
25.0
|
1.0
|
|
CA
|
D:ASP138
|
4.9
|
12.2
|
1.0
|
|
Calcium binding site 8 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 8 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca206
b:10.0
occ:1.00
|
O1P
|
D:TPO500
|
2.4
|
13.6
|
1.0
|
|
OD1
|
D:ASN59
|
2.4
|
10.2
|
1.0
|
|
OD1
|
D:ASP138
|
2.4
|
10.9
|
1.0
|
|
O
|
D:GLN137
|
2.5
|
8.6
|
1.0
|
|
OE2
|
D:GLU136
|
2.5
|
9.9
|
1.0
|
|
OD1
|
D:ASP58
|
2.5
|
12.3
|
1.0
|
|
OE1
|
D:GLU136
|
2.7
|
11.1
|
1.0
|
|
OD2
|
D:ASP58
|
2.7
|
11.7
|
1.0
|
|
CD
|
D:GLU136
|
2.9
|
11.3
|
1.0
|
|
CG
|
D:ASP58
|
2.9
|
10.6
|
1.0
|
|
CG
|
D:ASN59
|
3.3
|
10.2
|
1.0
|
|
C
|
D:GLN137
|
3.5
|
8.8
|
1.0
|
|
CG
|
D:ASP138
|
3.6
|
13.7
|
1.0
|
|
ND2
|
D:ASN59
|
3.7
|
12.2
|
1.0
|
|
P
|
D:TPO500
|
3.7
|
28.4
|
1.0
|
|
CA
|
D:ASP138
|
3.8
|
12.2
|
1.0
|
|
CA
|
D:CA205
|
3.9
|
11.5
|
1.0
|
|
O2P
|
D:TPO500
|
4.1
|
19.3
|
1.0
|
|
N
|
D:ASP138
|
4.1
|
9.1
|
1.0
|
|
O
|
D:HOH2076
|
4.1
|
9.0
|
1.0
|
|
CB
|
D:ASP138
|
4.3
|
10.3
|
1.0
|
|
O3P
|
D:TPO500
|
4.3
|
33.7
|
1.0
|
|
N
|
D:ASN59
|
4.4
|
9.2
|
1.0
|
|
CG
|
D:GLU136
|
4.4
|
10.1
|
1.0
|
|
CB
|
D:ASP58
|
4.4
|
10.3
|
1.0
|
|
OD2
|
D:ASP138
|
4.6
|
12.5
|
1.0
|
|
CB
|
D:ASN59
|
4.6
|
9.7
|
1.0
|
|
CA
|
D:GLN137
|
4.7
|
8.8
|
1.0
|
|
N
|
D:GLN137
|
4.8
|
8.5
|
1.0
|
|
ND2
|
D:ASN53
|
4.8
|
8.5
|
1.0
|
|
O
|
D:HOH2094
|
4.9
|
29.3
|
1.0
|
|
CA
|
D:ASN59
|
4.9
|
9.2
|
1.0
|
|
OG1
|
D:TPO500
|
4.9
|
25.0
|
1.0
|
|
OD1
|
D:ASN53
|
4.9
|
10.4
|
1.0
|
|
Calcium binding site 9 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 9 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca205
b:8.2
occ:1.00
|
O1P
|
E:TPO500
|
2.3
|
11.2
|
1.0
|
|
OD1
|
E:ASP138
|
2.4
|
10.2
|
1.0
|
|
OD1
|
E:ASN59
|
2.4
|
8.5
|
1.0
|
|
OE2
|
E:GLU136
|
2.5
|
8.0
|
1.0
|
|
O
|
E:GLN137
|
2.5
|
8.9
|
1.0
|
|
OD1
|
E:ASP58
|
2.6
|
10.5
|
1.0
|
|
OE1
|
E:GLU136
|
2.6
|
8.5
|
1.0
|
|
OD2
|
E:ASP58
|
2.7
|
12.2
|
1.0
|
|
CD
|
E:GLU136
|
2.9
|
9.2
|
1.0
|
|
CG
|
E:ASP58
|
3.0
|
9.4
|
1.0
|
|
CG
|
E:ASN59
|
3.4
|
7.2
|
1.0
|
|
C
|
E:GLN137
|
3.5
|
10.2
|
1.0
|
|
CG
|
E:ASP138
|
3.6
|
9.5
|
1.0
|
|
P
|
E:TPO500
|
3.7
|
15.6
|
1.0
|
|
ND2
|
E:ASN59
|
3.7
|
7.8
|
1.0
|
|
CA
|
E:ASP138
|
3.8
|
10.2
|
1.0
|
|
CA
|
E:CA206
|
3.9
|
8.9
|
1.0
|
|
O2P
|
E:TPO500
|
4.1
|
12.3
|
1.0
|
|
N
|
E:ASP138
|
4.1
|
7.7
|
1.0
|
|
O
|
E:HOH2082
|
4.2
|
8.7
|
1.0
|
|
CB
|
E:ASP138
|
4.3
|
11.7
|
1.0
|
|
O
|
E:HOH2097
|
4.3
|
23.4
|
1.0
|
|
O3P
|
E:TPO500
|
4.4
|
17.5
|
1.0
|
|
N
|
E:ASN59
|
4.4
|
8.5
|
1.0
|
|
CG
|
E:GLU136
|
4.4
|
6.7
|
1.0
|
|
CB
|
E:ASP58
|
4.4
|
9.2
|
1.0
|
|
O
|
E:HOH2098
|
4.5
|
33.8
|
1.0
|
|
OD2
|
E:ASP138
|
4.5
|
9.2
|
1.0
|
|
CB
|
E:ASN59
|
4.7
|
9.5
|
1.0
|
|
CA
|
E:GLN137
|
4.8
|
6.5
|
1.0
|
|
N
|
E:GLN137
|
4.8
|
7.8
|
1.0
|
|
ND2
|
E:ASN53
|
4.8
|
8.1
|
1.0
|
|
OG1
|
E:TPO500
|
4.9
|
14.2
|
1.0
|
|
CA
|
E:ASN59
|
4.9
|
7.5
|
1.0
|
|
Calcium binding site 10 out
of 10 in 2w08
Go back to
Calcium Binding Sites List in 2w08
Calcium binding site 10 out
of 10 in the The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of The Structure of Serum Amyloid P Component Bound to 0- Phospho-Threonine within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca206
b:8.9
occ:1.00
|
O2P
|
E:TPO500
|
2.3
|
12.3
|
1.0
|
|
OE1
|
E:GLU136
|
2.4
|
8.5
|
1.0
|
|
O
|
E:HOH2201
|
2.4
|
10.2
|
1.0
|
|
OE1
|
E:GLN148
|
2.4
|
10.2
|
1.0
|
|
O
|
E:HOH2188
|
2.5
|
10.3
|
1.0
|
|
OD2
|
E:ASP138
|
2.6
|
9.2
|
1.0
|
|
OD1
|
E:ASP138
|
2.6
|
10.2
|
1.0
|
|
CG
|
E:ASP138
|
2.9
|
9.5
|
1.0
|
|
CD
|
E:GLN148
|
3.4
|
11.4
|
1.0
|
|
P
|
E:TPO500
|
3.5
|
15.6
|
1.0
|
|
NE2
|
E:GLN148
|
3.6
|
14.1
|
1.0
|
|
CD
|
E:GLU136
|
3.6
|
9.2
|
1.0
|
|
O1P
|
E:TPO500
|
3.8
|
11.2
|
1.0
|
|
CA
|
E:CA205
|
3.9
|
8.2
|
1.0
|
|
O
|
E:HOH2281
|
4.0
|
31.1
|
1.0
|
|
O
|
E:HOH2282
|
4.1
|
30.2
|
1.0
|
|
CB
|
E:ASP138
|
4.3
|
11.7
|
1.0
|
|
CB
|
E:ASP145
|
4.3
|
6.9
|
1.0
|
|
O3P
|
E:TPO500
|
4.3
|
17.5
|
1.0
|
|
CG
|
E:GLU136
|
4.3
|
6.7
|
1.0
|
|
CB
|
E:GLU136
|
4.4
|
8.2
|
1.0
|
|
O
|
E:GLU136
|
4.4
|
9.6
|
1.0
|
|
OE2
|
E:GLU136
|
4.5
|
8.0
|
1.0
|
|
OD2
|
E:ASP145
|
4.5
|
13.0
|
1.0
|
|
O
|
E:GLN137
|
4.7
|
8.9
|
1.0
|
|
CG
|
E:GLN148
|
4.8
|
9.1
|
1.0
|
|
OG1
|
E:TPO500
|
4.8
|
14.2
|
1.0
|
|
C
|
E:GLN137
|
4.8
|
10.2
|
1.0
|
|
O
|
E:LYS143
|
4.9
|
12.2
|
1.0
|
|
N
|
E:ASP138
|
4.9
|
7.7
|
1.0
|
|
C
|
E:GLU136
|
4.9
|
8.3
|
1.0
|
|
O
|
E:HOH2189
|
4.9
|
20.2
|
1.0
|
|
CA
|
E:ASP138
|
4.9
|
10.2
|
1.0
|
|
CG
|
E:ASP145
|
5.0
|
12.0
|
1.0
|
|
Reference:
S.E.Kolstoe,
B.H.Ridha,
V.Bellotti,
N.Wang,
C.V.Robinson,
S.J.Crutch,
G.Keir,
R.Kukkastenvehmas,
J.R.Gallimore,
W.L.Hutchinson,
P.N.Hawkins,
S.P.Wood,
M.N.Rossor,
M.B.Pepys.
Molecular Dissection of Alzheimer'S Disease Neuropathology By Depletion of Serum Amyloid P Component. Proc.Natl.Acad.Sci.Usa V. 106 7619 2009.
ISSN: ISSN 0027-8424
PubMed: 19372378
DOI: 10.1073/PNAS.0902640106
Page generated: Fri Jul 12 18:18:39 2024
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