Calcium in PDB 1lgn: Decameric Damp Complex of Human Serum Amyloid P Component
Protein crystallography data
The structure of Decameric Damp Complex of Human Serum Amyloid P Component, PDB code: 1lgn
was solved by
E.Hohenester,
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)
|
8.00 /
2.80
|
|
Space group
|
P 41 21 2
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
190.030,
190.030,
119.740,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
23.2 /
25.2
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Decameric Damp Complex of Human Serum Amyloid P Component
(pdb code 1lgn). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the
Decameric Damp Complex of Human Serum Amyloid P Component, PDB code: 1lgn:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 1 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca301
b:42.1
occ:1.00
|
OP2
|
A:DA401
|
2.3
|
50.2
|
1.0
|
|
OE2
|
A:GLU136
|
2.3
|
43.0
|
1.0
|
|
OD1
|
A:ASN59
|
2.4
|
48.7
|
1.0
|
|
OD1
|
A:ASP138
|
2.4
|
55.3
|
1.0
|
|
OD1
|
A:ASP58
|
2.5
|
56.8
|
1.0
|
|
O
|
A:GLN137
|
2.5
|
46.7
|
1.0
|
|
OE1
|
A:GLU136
|
2.9
|
39.2
|
1.0
|
|
OD2
|
A:ASP58
|
2.9
|
57.9
|
1.0
|
|
CD
|
A:GLU136
|
2.9
|
41.3
|
1.0
|
|
CG
|
A:ASP58
|
3.0
|
56.2
|
1.0
|
|
CG
|
A:ASN59
|
3.3
|
48.0
|
1.0
|
|
P
|
A:DA401
|
3.5
|
51.0
|
1.0
|
|
CG
|
A:ASP138
|
3.6
|
56.6
|
1.0
|
|
ND2
|
A:ASN59
|
3.6
|
48.2
|
1.0
|
|
C
|
A:GLN137
|
3.6
|
45.9
|
1.0
|
|
OP3
|
A:DA401
|
3.8
|
49.3
|
1.0
|
|
CA
|
A:ASP138
|
3.9
|
50.1
|
1.0
|
|
N
|
A:ASP138
|
4.2
|
47.8
|
1.0
|
|
CA
|
A:CA302
|
4.2
|
51.5
|
1.0
|
|
OP1
|
A:DA401
|
4.3
|
48.1
|
1.0
|
|
CB
|
A:ASP138
|
4.3
|
53.4
|
1.0
|
|
N
|
A:ASN59
|
4.4
|
48.7
|
1.0
|
|
CG
|
A:GLU136
|
4.4
|
38.2
|
1.0
|
|
OD2
|
A:ASP138
|
4.5
|
61.2
|
1.0
|
|
CB
|
A:ASP58
|
4.5
|
54.5
|
1.0
|
|
CB
|
A:ASN59
|
4.6
|
47.2
|
1.0
|
|
O5'
|
A:DA401
|
4.7
|
49.7
|
1.0
|
|
CA
|
A:GLN137
|
4.9
|
44.6
|
1.0
|
|
CA
|
A:ASN59
|
4.9
|
46.8
|
1.0
|
|
N
|
A:GLN137
|
4.9
|
42.0
|
1.0
|
|
ND2
|
A:ASN53
|
5.0
|
50.2
|
1.0
|
|
Calcium binding site 2 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 2 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca302
b:51.5
occ:1.00
|
OD2
|
A:ASP138
|
2.4
|
61.2
|
1.0
|
|
OP3
|
A:DA401
|
2.4
|
49.3
|
1.0
|
|
OE1
|
A:GLU136
|
2.4
|
39.2
|
1.0
|
|
OE1
|
A:GLN148
|
2.4
|
43.0
|
1.0
|
|
OD1
|
A:ASP138
|
2.7
|
55.3
|
1.0
|
|
CG
|
A:ASP138
|
2.7
|
56.6
|
1.0
|
|
CD
|
A:GLN148
|
3.6
|
41.6
|
1.0
|
|
CD
|
A:GLU136
|
3.7
|
41.3
|
1.0
|
|
P
|
A:DA401
|
3.7
|
51.0
|
1.0
|
|
CB
|
A:ASP145
|
3.8
|
52.5
|
1.0
|
|
O
|
A:GLU136
|
4.0
|
42.0
|
1.0
|
|
NE2
|
A:GLN148
|
4.1
|
43.7
|
1.0
|
|
CB
|
A:ASP138
|
4.1
|
53.4
|
1.0
|
|
N7
|
A:DA401
|
4.2
|
62.5
|
1.0
|
|
CA
|
A:CA301
|
4.2
|
42.1
|
1.0
|
|
OP2
|
A:DA401
|
4.2
|
50.2
|
1.0
|
|
OP1
|
A:DA401
|
4.3
|
48.1
|
1.0
|
|
C8
|
A:DA401
|
4.3
|
60.6
|
1.0
|
|
CB
|
A:GLU136
|
4.5
|
38.5
|
1.0
|
|
CG
|
A:GLU136
|
4.5
|
38.2
|
1.0
|
|
OE2
|
A:GLU136
|
4.5
|
43.0
|
1.0
|
|
O
|
A:GLN137
|
4.7
|
46.7
|
1.0
|
|
CG
|
A:ASP145
|
4.7
|
52.3
|
1.0
|
|
N
|
A:ASP145
|
4.7
|
55.1
|
1.0
|
|
C
|
A:GLU136
|
4.7
|
41.2
|
1.0
|
|
O
|
A:LYS143
|
4.8
|
52.5
|
1.0
|
|
CG
|
A:GLN148
|
4.8
|
40.0
|
1.0
|
|
OD2
|
A:ASP145
|
4.8
|
52.3
|
1.0
|
|
CA
|
A:ASP145
|
4.9
|
52.2
|
1.0
|
|
CA
|
A:ASP138
|
4.9
|
50.1
|
1.0
|
|
O5'
|
A:DA401
|
4.9
|
49.7
|
1.0
|
|
C
|
A:GLN137
|
4.9
|
45.9
|
1.0
|
|
Calcium binding site 3 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 3 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca301
b:42.1
occ:1.00
|
OE2
|
B:GLU136
|
2.3
|
37.7
|
1.0
|
|
OP2
|
B:DA401
|
2.3
|
51.3
|
1.0
|
|
OD1
|
B:ASN59
|
2.3
|
50.6
|
1.0
|
|
OD1
|
B:ASP58
|
2.4
|
54.6
|
1.0
|
|
OD1
|
B:ASP138
|
2.4
|
53.0
|
1.0
|
|
O
|
B:GLN137
|
2.6
|
47.3
|
1.0
|
|
OD2
|
B:ASP58
|
2.8
|
55.8
|
1.0
|
|
CG
|
B:ASP58
|
3.0
|
55.0
|
1.0
|
|
CD
|
B:GLU136
|
3.0
|
39.3
|
1.0
|
|
OE1
|
B:GLU136
|
3.0
|
37.5
|
1.0
|
|
CG
|
B:ASN59
|
3.3
|
47.6
|
1.0
|
|
P
|
B:DA401
|
3.5
|
51.4
|
1.0
|
|
CG
|
B:ASP138
|
3.6
|
54.7
|
1.0
|
|
ND2
|
B:ASN59
|
3.7
|
47.4
|
1.0
|
|
C
|
B:GLN137
|
3.7
|
44.7
|
1.0
|
|
CA
|
B:ASP138
|
3.8
|
48.9
|
1.0
|
|
OP3
|
B:DA401
|
3.9
|
51.5
|
1.0
|
|
CA
|
B:CA302
|
4.2
|
51.7
|
1.0
|
|
N
|
B:ASP138
|
4.2
|
46.1
|
1.0
|
|
OP1
|
B:DA401
|
4.3
|
49.7
|
1.0
|
|
N
|
B:ASN59
|
4.3
|
47.9
|
1.0
|
|
CB
|
B:ASP138
|
4.3
|
52.4
|
1.0
|
|
CG
|
B:GLU136
|
4.5
|
38.9
|
1.0
|
|
CB
|
B:ASP58
|
4.5
|
54.6
|
1.0
|
|
OD2
|
B:ASP138
|
4.6
|
57.6
|
1.0
|
|
CB
|
B:ASN59
|
4.6
|
45.7
|
1.0
|
|
O5'
|
B:DA401
|
4.8
|
50.8
|
1.0
|
|
CA
|
B:ASN59
|
4.8
|
45.2
|
1.0
|
|
ND2
|
B:ASN53
|
4.9
|
51.7
|
1.0
|
|
CA
|
B:GLN137
|
4.9
|
43.5
|
1.0
|
|
N
|
B:GLN137
|
5.0
|
42.5
|
1.0
|
|
C
|
B:ASP58
|
5.0
|
50.7
|
1.0
|
|
C
|
B:ASP138
|
5.0
|
50.2
|
1.0
|
|
Calcium binding site 4 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 4 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca302
b:51.7
occ:1.00
|
OD2
|
B:ASP145
|
2.2
|
79.1
|
1.0
|
|
OE1
|
B:GLU136
|
2.2
|
37.5
|
1.0
|
|
OE1
|
B:GLN148
|
2.4
|
39.5
|
1.0
|
|
OP3
|
B:DA401
|
2.4
|
51.5
|
1.0
|
|
OD2
|
B:ASP138
|
2.5
|
57.6
|
1.0
|
|
OD1
|
B:ASP138
|
2.5
|
53.0
|
1.0
|
|
CG
|
B:ASP138
|
2.7
|
54.7
|
1.0
|
|
CG
|
B:ASP145
|
3.3
|
75.4
|
1.0
|
|
CD
|
B:GLU136
|
3.4
|
39.3
|
1.0
|
|
CD
|
B:GLN148
|
3.5
|
40.2
|
1.0
|
|
P
|
B:DA401
|
3.7
|
51.4
|
1.0
|
|
CB
|
B:ASP145
|
3.8
|
66.0
|
1.0
|
|
O
|
B:GLU136
|
3.9
|
43.2
|
1.0
|
|
CB
|
B:ASP138
|
4.1
|
52.4
|
1.0
|
|
NE2
|
B:GLN148
|
4.1
|
44.1
|
1.0
|
|
CA
|
B:CA301
|
4.2
|
42.1
|
1.0
|
|
OP2
|
B:DA401
|
4.2
|
51.3
|
1.0
|
|
N7
|
B:DA401
|
4.2
|
64.1
|
1.0
|
|
OE2
|
B:GLU136
|
4.3
|
37.7
|
1.0
|
|
CG
|
B:GLU136
|
4.3
|
38.9
|
1.0
|
|
CB
|
B:GLU136
|
4.3
|
38.6
|
1.0
|
|
OD1
|
B:ASP145
|
4.4
|
80.8
|
1.0
|
|
C8
|
B:DA401
|
4.4
|
60.4
|
1.0
|
|
OP1
|
B:DA401
|
4.4
|
49.7
|
1.0
|
|
C
|
B:GLU136
|
4.6
|
41.5
|
1.0
|
|
O
|
B:GLN137
|
4.6
|
47.3
|
1.0
|
|
CG
|
B:GLN148
|
4.7
|
37.8
|
1.0
|
|
N
|
B:ASP145
|
4.7
|
57.6
|
1.0
|
|
O
|
B:LYS143
|
4.8
|
54.1
|
1.0
|
|
CA
|
B:ASP138
|
4.8
|
48.9
|
1.0
|
|
C
|
B:GLN137
|
4.9
|
44.7
|
1.0
|
|
CA
|
B:ASP145
|
4.9
|
58.2
|
1.0
|
|
O5'
|
B:DA401
|
4.9
|
50.8
|
1.0
|
|
N
|
B:ASP138
|
5.0
|
46.1
|
1.0
|
|
Calcium binding site 5 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 5 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca301
b:44.1
occ:1.00
|
OE2
|
C:GLU136
|
2.3
|
42.5
|
1.0
|
|
OD1
|
C:ASP138
|
2.4
|
60.0
|
1.0
|
|
OP2
|
C:DA401
|
2.4
|
51.0
|
1.0
|
|
O
|
C:GLN137
|
2.4
|
47.5
|
1.0
|
|
OD1
|
C:ASP58
|
2.4
|
56.9
|
1.0
|
|
OD1
|
C:ASN59
|
2.4
|
49.8
|
1.0
|
|
OD2
|
C:ASP58
|
2.8
|
59.1
|
1.0
|
|
CG
|
C:ASP58
|
3.0
|
58.4
|
1.0
|
|
OE1
|
C:GLU136
|
3.0
|
40.5
|
1.0
|
|
CD
|
C:GLU136
|
3.0
|
41.8
|
1.0
|
|
CG
|
C:ASN59
|
3.3
|
48.9
|
1.0
|
|
C
|
C:GLN137
|
3.6
|
46.1
|
1.0
|
|
P
|
C:DA401
|
3.6
|
52.2
|
1.0
|
|
CG
|
C:ASP138
|
3.6
|
58.9
|
1.0
|
|
ND2
|
C:ASN59
|
3.6
|
47.6
|
1.0
|
|
CA
|
C:ASP138
|
3.8
|
50.9
|
1.0
|
|
OP3
|
C:DA401
|
3.8
|
49.1
|
1.0
|
|
N
|
C:ASP138
|
4.1
|
47.7
|
1.0
|
|
CB
|
C:ASP138
|
4.3
|
54.7
|
1.0
|
|
OP1
|
C:DA401
|
4.3
|
51.3
|
1.0
|
|
CA
|
C:CA302
|
4.3
|
56.5
|
1.0
|
|
N
|
C:ASN59
|
4.4
|
51.6
|
1.0
|
|
CB
|
C:ASP58
|
4.5
|
57.5
|
1.0
|
|
CG
|
C:GLU136
|
4.5
|
38.4
|
1.0
|
|
OD2
|
C:ASP138
|
4.6
|
61.7
|
1.0
|
|
CB
|
C:ASN59
|
4.6
|
48.5
|
1.0
|
|
CA
|
C:GLN137
|
4.8
|
44.4
|
1.0
|
|
ND2
|
C:ASN53
|
4.8
|
53.8
|
1.0
|
|
O5'
|
C:DA401
|
4.9
|
52.4
|
1.0
|
|
CA
|
C:ASN59
|
4.9
|
48.5
|
1.0
|
|
N
|
C:GLN137
|
4.9
|
43.3
|
1.0
|
|
C
|
C:ASP138
|
4.9
|
52.5
|
1.0
|
|
C
|
C:ASP58
|
5.0
|
54.5
|
1.0
|
|
Calcium binding site 6 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 6 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca302
b:56.5
occ:1.00
|
OD2
|
C:ASP138
|
2.3
|
61.7
|
1.0
|
|
OE1
|
C:GLU136
|
2.4
|
40.5
|
1.0
|
|
OP3
|
C:DA401
|
2.5
|
49.1
|
1.0
|
|
OE1
|
C:GLN148
|
2.5
|
42.5
|
1.0
|
|
OD1
|
C:ASP138
|
2.7
|
60.0
|
1.0
|
|
CG
|
C:ASP138
|
2.7
|
58.9
|
1.0
|
|
CD
|
C:GLN148
|
3.7
|
41.6
|
1.0
|
|
CD
|
C:GLU136
|
3.7
|
41.8
|
1.0
|
|
CB
|
C:ASP145
|
3.7
|
57.6
|
0.0
|
|
O
|
C:GLU136
|
3.8
|
44.2
|
1.0
|
|
P
|
C:DA401
|
3.9
|
52.2
|
1.0
|
|
CB
|
C:ASP138
|
4.0
|
54.7
|
1.0
|
|
N7
|
C:DA401
|
4.2
|
66.5
|
1.0
|
|
NE2
|
C:GLN148
|
4.2
|
45.2
|
1.0
|
|
OD2
|
C:ASP145
|
4.3
|
57.4
|
0.0
|
|
CA
|
C:CA301
|
4.3
|
44.1
|
1.0
|
|
OP2
|
C:DA401
|
4.4
|
51.0
|
1.0
|
|
C8
|
C:DA401
|
4.4
|
62.9
|
1.0
|
|
CG
|
C:ASP145
|
4.5
|
57.4
|
0.0
|
|
CB
|
C:GLU136
|
4.5
|
38.9
|
1.0
|
|
OP1
|
C:DA401
|
4.5
|
51.3
|
1.0
|
|
OE2
|
C:GLU136
|
4.5
|
42.5
|
1.0
|
|
CG
|
C:GLU136
|
4.6
|
38.4
|
1.0
|
|
O
|
C:LYS143
|
4.6
|
55.1
|
1.0
|
|
N
|
C:ASP145
|
4.6
|
59.2
|
1.0
|
|
C
|
C:GLU136
|
4.7
|
42.6
|
1.0
|
|
O
|
C:GLN137
|
4.7
|
47.5
|
1.0
|
|
CA
|
C:ASP145
|
4.8
|
57.5
|
1.0
|
|
CG
|
C:GLN148
|
4.8
|
37.6
|
1.0
|
|
CA
|
C:ASP138
|
4.8
|
50.9
|
1.0
|
|
C
|
C:GLN137
|
4.9
|
46.1
|
1.0
|
|
N
|
C:ASP138
|
4.9
|
47.7
|
1.0
|
|
Calcium binding site 7 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 7 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca301
b:51.4
occ:1.00
|
OP2
|
D:DA401
|
2.2
|
50.1
|
1.0
|
|
OE2
|
D:GLU136
|
2.3
|
45.0
|
1.0
|
|
OD1
|
D:ASP138
|
2.4
|
57.0
|
1.0
|
|
OD1
|
D:ASN59
|
2.4
|
47.9
|
1.0
|
|
OD1
|
D:ASP58
|
2.5
|
53.5
|
1.0
|
|
O
|
D:GLN137
|
2.6
|
45.9
|
1.0
|
|
OE1
|
D:GLU136
|
2.9
|
42.8
|
1.0
|
|
OD2
|
D:ASP58
|
2.9
|
56.0
|
1.0
|
|
CD
|
D:GLU136
|
2.9
|
43.9
|
1.0
|
|
CG
|
D:ASP58
|
3.1
|
55.7
|
1.0
|
|
CG
|
D:ASN59
|
3.3
|
45.7
|
1.0
|
|
P
|
D:DA401
|
3.4
|
51.5
|
1.0
|
|
CG
|
D:ASP138
|
3.6
|
56.5
|
1.0
|
|
ND2
|
D:ASN59
|
3.7
|
45.5
|
1.0
|
|
OP3
|
D:DA401
|
3.7
|
48.4
|
1.0
|
|
C
|
D:GLN137
|
3.7
|
45.5
|
1.0
|
|
CA
|
D:ASP138
|
3.9
|
50.2
|
1.0
|
|
CA
|
D:CA302
|
4.2
|
49.9
|
1.0
|
|
OP1
|
D:DA401
|
4.3
|
49.2
|
1.0
|
|
N
|
D:ASP138
|
4.3
|
47.7
|
1.0
|
|
CB
|
D:ASP138
|
4.3
|
52.8
|
1.0
|
|
N
|
D:ASN59
|
4.4
|
50.4
|
1.0
|
|
CG
|
D:GLU136
|
4.4
|
41.8
|
1.0
|
|
OD2
|
D:ASP138
|
4.5
|
61.2
|
1.0
|
|
CB
|
D:ASP58
|
4.6
|
55.8
|
1.0
|
|
CB
|
D:ASN59
|
4.7
|
45.1
|
1.0
|
|
O5'
|
D:DA401
|
4.7
|
50.9
|
1.0
|
|
CA
|
D:ASN59
|
4.9
|
46.3
|
1.0
|
|
CA
|
D:GLN137
|
4.9
|
43.8
|
1.0
|
|
ND2
|
D:ASN53
|
4.9
|
49.0
|
1.0
|
|
N
|
D:GLN137
|
5.0
|
45.3
|
1.0
|
|
Calcium binding site 8 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 8 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca302
b:49.9
occ:1.00
|
OD2
|
D:ASP138
|
2.3
|
61.2
|
1.0
|
|
OP3
|
D:DA401
|
2.4
|
48.4
|
1.0
|
|
OE1
|
D:GLU136
|
2.4
|
42.8
|
1.0
|
|
OE1
|
D:GLN148
|
2.5
|
43.4
|
1.0
|
|
OD1
|
D:ASP138
|
2.7
|
57.0
|
1.0
|
|
CG
|
D:ASP138
|
2.7
|
56.5
|
1.0
|
|
CD
|
D:GLN148
|
3.6
|
41.7
|
1.0
|
|
CD
|
D:GLU136
|
3.6
|
43.9
|
1.0
|
|
CB
|
D:ASP145
|
3.7
|
57.3
|
1.0
|
|
P
|
D:DA401
|
3.7
|
51.5
|
1.0
|
|
O
|
D:GLU136
|
4.0
|
45.5
|
1.0
|
|
OD2
|
D:ASP145
|
4.0
|
58.8
|
1.0
|
|
NE2
|
D:GLN148
|
4.1
|
44.6
|
1.0
|
|
N7
|
D:DA401
|
4.1
|
64.1
|
1.0
|
|
CB
|
D:ASP138
|
4.1
|
52.8
|
1.0
|
|
OP2
|
D:DA401
|
4.2
|
50.1
|
1.0
|
|
CA
|
D:CA301
|
4.2
|
51.4
|
1.0
|
|
C8
|
D:DA401
|
4.3
|
60.9
|
1.0
|
|
CG
|
D:ASP145
|
4.3
|
58.1
|
1.0
|
|
OP1
|
D:DA401
|
4.4
|
49.2
|
1.0
|
|
OE2
|
D:GLU136
|
4.5
|
45.0
|
1.0
|
|
CG
|
D:GLU136
|
4.5
|
41.8
|
1.0
|
|
CB
|
D:GLU136
|
4.5
|
40.6
|
1.0
|
|
N
|
D:ASP145
|
4.7
|
56.4
|
1.0
|
|
O
|
D:GLN137
|
4.7
|
45.9
|
1.0
|
|
C
|
D:GLU136
|
4.8
|
44.8
|
1.0
|
|
O
|
D:LYS143
|
4.8
|
54.5
|
1.0
|
|
CG
|
D:GLN148
|
4.8
|
39.7
|
1.0
|
|
CA
|
D:ASP145
|
4.8
|
56.0
|
1.0
|
|
O5'
|
D:DA401
|
4.9
|
50.9
|
1.0
|
|
CA
|
D:ASP138
|
4.9
|
50.2
|
1.0
|
|
C
|
D:GLN137
|
5.0
|
45.5
|
1.0
|
|
Calcium binding site 9 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 9 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca301
b:46.1
occ:1.00
|
OD1
|
E:ASP138
|
2.3
|
54.6
|
1.0
|
|
OP2
|
E:DA401
|
2.4
|
50.3
|
1.0
|
|
OE2
|
E:GLU136
|
2.4
|
42.4
|
1.0
|
|
OD1
|
E:ASN59
|
2.4
|
48.7
|
1.0
|
|
OD1
|
E:ASP58
|
2.5
|
56.7
|
1.0
|
|
O
|
E:GLN137
|
2.5
|
48.6
|
1.0
|
|
OE1
|
E:GLU136
|
2.9
|
41.2
|
1.0
|
|
OD2
|
E:ASP58
|
2.9
|
57.9
|
1.0
|
|
CD
|
E:GLU136
|
3.0
|
42.5
|
1.0
|
|
CG
|
E:ASP58
|
3.0
|
57.1
|
1.0
|
|
CG
|
E:ASN59
|
3.4
|
47.7
|
1.0
|
|
CG
|
E:ASP138
|
3.5
|
56.0
|
1.0
|
|
P
|
E:DA401
|
3.5
|
52.9
|
1.0
|
|
C
|
E:GLN137
|
3.6
|
47.5
|
1.0
|
|
ND2
|
E:ASN59
|
3.7
|
49.8
|
1.0
|
|
CA
|
E:ASP138
|
3.7
|
51.7
|
1.0
|
|
OP3
|
E:DA401
|
3.8
|
51.0
|
1.0
|
|
N
|
E:ASP138
|
4.1
|
49.0
|
1.0
|
|
CA
|
E:CA302
|
4.2
|
49.8
|
1.0
|
|
CB
|
E:ASP138
|
4.2
|
53.5
|
1.0
|
|
OP1
|
E:DA401
|
4.3
|
50.4
|
1.0
|
|
N
|
E:ASN59
|
4.4
|
48.7
|
1.0
|
|
OD2
|
E:ASP138
|
4.5
|
59.7
|
1.0
|
|
CG
|
E:GLU136
|
4.5
|
40.9
|
1.0
|
|
CB
|
E:ASP58
|
4.6
|
55.8
|
1.0
|
|
CB
|
E:ASN59
|
4.7
|
46.0
|
1.0
|
|
O5'
|
E:DA401
|
4.8
|
51.1
|
1.0
|
|
CA
|
E:GLN137
|
4.8
|
45.5
|
1.0
|
|
ND2
|
E:ASN53
|
4.8
|
51.7
|
1.0
|
|
CA
|
E:ASN59
|
4.9
|
47.1
|
1.0
|
|
N
|
E:GLN137
|
4.9
|
43.9
|
1.0
|
|
C
|
E:ASP138
|
4.9
|
53.5
|
1.0
|
|
Calcium binding site 10 out
of 10 in 1lgn
Go back to
Calcium Binding Sites List in 1lgn
Calcium binding site 10 out
of 10 in the Decameric Damp Complex of Human Serum Amyloid P Component
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Decameric Damp Complex of Human Serum Amyloid P Component within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca302
b:49.8
occ:1.00
|
OE1
|
E:GLU136
|
2.3
|
41.2
|
1.0
|
|
OE1
|
E:GLN148
|
2.4
|
42.5
|
1.0
|
|
OP3
|
E:DA401
|
2.4
|
51.0
|
1.0
|
|
OD2
|
E:ASP138
|
2.5
|
59.7
|
1.0
|
|
OD1
|
E:ASP138
|
2.6
|
54.6
|
1.0
|
|
OD2
|
E:ASP145
|
2.6
|
81.2
|
1.0
|
|
CG
|
E:ASP138
|
2.8
|
56.0
|
1.0
|
|
CD
|
E:GLN148
|
3.5
|
42.6
|
1.0
|
|
CD
|
E:GLU136
|
3.5
|
42.5
|
1.0
|
|
CG
|
E:ASP145
|
3.6
|
77.8
|
1.0
|
|
P
|
E:DA401
|
3.7
|
52.9
|
1.0
|
|
CB
|
E:ASP145
|
3.8
|
69.9
|
1.0
|
|
O
|
E:GLU136
|
3.9
|
44.4
|
1.0
|
|
NE2
|
E:GLN148
|
4.1
|
45.2
|
1.0
|
|
CB
|
E:ASP138
|
4.1
|
53.5
|
1.0
|
|
CA
|
E:CA301
|
4.2
|
46.1
|
1.0
|
|
N7
|
E:DA401
|
4.2
|
64.5
|
1.0
|
|
OP2
|
E:DA401
|
4.2
|
50.3
|
1.0
|
|
CB
|
E:GLU136
|
4.3
|
41.1
|
1.0
|
|
C8
|
E:DA401
|
4.3
|
61.2
|
1.0
|
|
CG
|
E:GLU136
|
4.4
|
40.9
|
1.0
|
|
OP1
|
E:DA401
|
4.4
|
50.4
|
1.0
|
|
OE2
|
E:GLU136
|
4.4
|
42.4
|
1.0
|
|
C
|
E:GLU136
|
4.6
|
43.2
|
1.0
|
|
N
|
E:ASP145
|
4.7
|
60.1
|
1.0
|
|
CG
|
E:GLN148
|
4.7
|
40.7
|
1.0
|
|
OD1
|
E:ASP145
|
4.7
|
82.1
|
1.0
|
|
O
|
E:LYS143
|
4.8
|
57.3
|
1.0
|
|
O
|
E:GLN137
|
4.8
|
48.6
|
1.0
|
|
CA
|
E:ASP138
|
4.9
|
51.7
|
1.0
|
|
CA
|
E:ASP145
|
4.9
|
61.3
|
1.0
|
|
C
|
E:GLN137
|
4.9
|
47.5
|
1.0
|
|
N
|
E:ASP138
|
4.9
|
49.0
|
1.0
|
|
O5'
|
E:DA401
|
4.9
|
51.1
|
1.0
|
|
Reference:
E.Hohenester,
W.L.Hutchinson,
M.B.Pepys,
S.P.Wood.
Crystal Structure of A Decameric Complex of Human Serum Amyloid P Component with Bound Damp. J.Mol.Biol. V. 269 570 1997.
ISSN: ISSN 0022-2836
PubMed: 9217261
DOI: 10.1006/JMBI.1997.1075
Page generated: Thu Jul 11 11:54:09 2024
|
