Calcium in PDB 5czr: Crystal Structure of Human Protocadherin-24 EC1-2
Protein crystallography data
The structure of Crystal Structure of Human Protocadherin-24 EC1-2, PDB code: 5czr
was solved by
Z.R.Johnson,
M.Sotomayor,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
50.00 /
2.30
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
70.879,
119.769,
74.318,
90.00,
104.12,
90.00
|
R / Rfree (%)
|
20.5 /
23.5
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
16;
Binding sites:
The binding sites of Calcium atom in the Crystal Structure of Human Protocadherin-24 EC1-2
(pdb code 5czr). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 16 binding sites of Calcium where determined in the
Crystal Structure of Human Protocadherin-24 EC1-2, PDB code: 5czr:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 1 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1001
b:39.8
occ:1.00
|
OD2
|
A:ASP36
|
2.2
|
35.5
|
1.0
|
OD1
|
A:ASN1
|
2.4
|
39.9
|
1.0
|
O
|
A:VAL2
|
2.4
|
36.6
|
1.0
|
OD2
|
A:ASP81
|
2.5
|
33.9
|
1.0
|
OD2
|
A:ASP34
|
2.5
|
45.0
|
1.0
|
OD2
|
A:ASP32
|
2.5
|
35.9
|
1.0
|
OD1
|
A:ASP32
|
2.6
|
37.8
|
1.0
|
CG
|
A:ASP32
|
2.9
|
38.9
|
1.0
|
CG
|
A:ASN1
|
3.3
|
43.5
|
1.0
|
CG
|
A:ASP36
|
3.4
|
38.9
|
1.0
|
CG
|
A:ASP81
|
3.5
|
33.2
|
1.0
|
CG
|
A:ASP34
|
3.5
|
46.9
|
1.0
|
C
|
A:VAL2
|
3.6
|
40.4
|
1.0
|
ND2
|
A:ASN1
|
3.6
|
41.4
|
1.0
|
CB
|
A:ASP34
|
3.8
|
45.0
|
1.0
|
CB
|
A:ASP81
|
3.9
|
31.9
|
1.0
|
CB
|
A:ASP36
|
4.0
|
38.1
|
1.0
|
N
|
A:VAL2
|
4.0
|
43.7
|
1.0
|
CA
|
A:VAL2
|
4.3
|
43.1
|
1.0
|
OD1
|
A:ASP36
|
4.4
|
44.4
|
1.0
|
CB
|
A:ASP32
|
4.5
|
40.5
|
1.0
|
OD1
|
A:ASP81
|
4.6
|
33.5
|
1.0
|
N
|
A:ASP34
|
4.6
|
47.1
|
1.0
|
N
|
A:ALA3
|
4.6
|
38.4
|
1.0
|
OD1
|
A:ASP34
|
4.7
|
54.0
|
1.0
|
CD
|
A:PRO4
|
4.7
|
35.8
|
1.0
|
CB
|
A:ASN1
|
4.7
|
43.9
|
1.0
|
CB
|
A:VAL2
|
4.8
|
45.5
|
1.0
|
CA
|
A:ASP34
|
4.8
|
46.0
|
1.0
|
N
|
A:PRO4
|
4.8
|
37.2
|
1.0
|
CD2
|
A:TYR83
|
4.8
|
36.6
|
1.0
|
CA
|
A:ALA3
|
4.8
|
39.1
|
1.0
|
C
|
A:ALA3
|
4.8
|
39.3
|
1.0
|
C
|
A:ASN1
|
4.9
|
46.0
|
1.0
|
|
Calcium binding site 2 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 2 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1002
b:45.0
occ:1.00
|
OD1
|
A:ASP66
|
2.1
|
31.0
|
1.0
|
O
|
A:HOH1138
|
2.2
|
21.6
|
1.0
|
OE1
|
A:GLU68
|
2.2
|
30.6
|
1.0
|
O
|
A:HOH1154
|
2.2
|
31.5
|
1.0
|
OD2
|
A:ASP99
|
2.3
|
30.4
|
1.0
|
OE2
|
A:GLU17
|
2.3
|
28.3
|
1.0
|
CG
|
A:ASP66
|
3.1
|
29.9
|
1.0
|
CG
|
A:ASP99
|
3.3
|
30.2
|
1.0
|
CD
|
A:GLU17
|
3.3
|
27.6
|
1.0
|
CD
|
A:GLU68
|
3.4
|
29.1
|
1.0
|
OD1
|
A:ASP99
|
3.6
|
30.8
|
1.0
|
OE1
|
A:GLU17
|
3.7
|
29.2
|
1.0
|
O
|
A:HOH1135
|
3.7
|
34.2
|
1.0
|
OD2
|
A:ASP66
|
3.7
|
30.3
|
1.0
|
CB
|
A:ASP66
|
4.0
|
28.2
|
1.0
|
O
|
A:HOH1142
|
4.1
|
26.9
|
1.0
|
N
|
A:TYR67
|
4.1
|
26.5
|
1.0
|
CA
|
A:ASP66
|
4.1
|
28.2
|
1.0
|
N
|
A:GLU68
|
4.2
|
29.1
|
1.0
|
CB
|
A:GLU68
|
4.2
|
30.6
|
1.0
|
O
|
A:HOH1132
|
4.2
|
28.1
|
1.0
|
CG
|
A:GLU68
|
4.2
|
30.4
|
1.0
|
CA
|
A:CA1003
|
4.2
|
27.0
|
1.0
|
OE2
|
A:GLU68
|
4.3
|
31.0
|
1.0
|
C
|
A:ASP66
|
4.4
|
27.3
|
1.0
|
ND2
|
A:ASN100
|
4.5
|
29.1
|
1.0
|
CG
|
A:GLU17
|
4.5
|
27.4
|
1.0
|
CB
|
A:ASP99
|
4.6
|
28.8
|
1.0
|
CA
|
A:GLU68
|
4.9
|
30.5
|
1.0
|
CA
|
A:TYR67
|
5.0
|
28.4
|
1.0
|
CB
|
A:GLU17
|
5.0
|
26.9
|
1.0
|
|
Calcium binding site 3 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 3 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1003
b:27.0
occ:1.00
|
OD1
|
A:ASP96
|
2.2
|
28.7
|
1.0
|
OD1
|
A:ASP132
|
2.3
|
26.4
|
1.0
|
OE1
|
A:GLU17
|
2.3
|
29.2
|
1.0
|
OD1
|
A:ASP99
|
2.3
|
30.8
|
1.0
|
OE2
|
A:GLU68
|
2.4
|
31.0
|
1.0
|
O
|
A:ARG97
|
2.4
|
26.5
|
1.0
|
OE1
|
A:GLU68
|
2.9
|
30.6
|
1.0
|
CD
|
A:GLU68
|
3.0
|
29.1
|
1.0
|
CG
|
A:ASP99
|
3.3
|
30.2
|
1.0
|
CG
|
A:ASP96
|
3.3
|
30.0
|
1.0
|
CG
|
A:ASP132
|
3.4
|
27.5
|
1.0
|
CD
|
A:GLU17
|
3.4
|
27.6
|
1.0
|
C
|
A:ARG97
|
3.6
|
27.1
|
1.0
|
N
|
A:ARG97
|
3.7
|
26.2
|
1.0
|
OD2
|
A:ASP99
|
3.8
|
30.4
|
1.0
|
ND2
|
A:ASN100
|
3.8
|
29.1
|
1.0
|
OE2
|
A:GLU17
|
3.9
|
28.3
|
1.0
|
OD2
|
A:ASP96
|
4.0
|
30.4
|
1.0
|
N
|
A:ASP99
|
4.1
|
27.4
|
1.0
|
OD2
|
A:ASP132
|
4.2
|
27.9
|
1.0
|
CB
|
A:ASP132
|
4.2
|
27.3
|
1.0
|
CA
|
A:CA1002
|
4.2
|
45.0
|
1.0
|
CA
|
A:ARG97
|
4.3
|
27.3
|
1.0
|
CG
|
A:GLU68
|
4.5
|
30.4
|
1.0
|
CB
|
A:ASP96
|
4.5
|
28.7
|
1.0
|
CB
|
A:ASP99
|
4.5
|
28.8
|
1.0
|
CA
|
A:ASP96
|
4.5
|
28.0
|
1.0
|
CA
|
A:ASP132
|
4.5
|
28.8
|
1.0
|
O
|
A:HOH1122
|
4.6
|
28.6
|
1.0
|
C
|
A:ASP96
|
4.6
|
26.7
|
1.0
|
N
|
A:ASN98
|
4.7
|
26.8
|
1.0
|
CG
|
A:GLU17
|
4.7
|
27.4
|
1.0
|
CB
|
A:TYR67
|
4.7
|
29.4
|
1.0
|
CA
|
A:ASP99
|
4.7
|
28.0
|
1.0
|
CA
|
A:ASN98
|
4.9
|
26.9
|
1.0
|
O
|
A:HOH1138
|
4.9
|
21.6
|
1.0
|
N
|
A:ASN100
|
5.0
|
28.1
|
1.0
|
CD2
|
A:TYR67
|
5.0
|
32.2
|
1.0
|
C
|
A:ASN98
|
5.0
|
27.1
|
1.0
|
|
Calcium binding site 4 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 4 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1004
b:23.3
occ:1.00
|
O
|
A:ASN100
|
2.2
|
25.1
|
1.0
|
OD1
|
A:ASN98
|
2.3
|
27.4
|
1.0
|
O
|
A:ALA136
|
2.3
|
27.5
|
1.0
|
OD2
|
A:ASP188
|
2.5
|
23.9
|
1.0
|
OD2
|
A:ASP132
|
2.5
|
27.9
|
1.0
|
OD2
|
A:ASP130
|
2.5
|
24.8
|
1.0
|
OD1
|
A:ASP130
|
2.6
|
24.4
|
1.0
|
CG
|
A:ASP130
|
2.9
|
25.3
|
1.0
|
C
|
A:ASN100
|
3.3
|
27.5
|
1.0
|
CG
|
A:ASP132
|
3.4
|
27.5
|
1.0
|
CG
|
A:ASP188
|
3.5
|
26.7
|
1.0
|
CG
|
A:ASN98
|
3.5
|
26.2
|
1.0
|
C
|
A:ALA136
|
3.5
|
27.1
|
1.0
|
CB
|
A:ASP132
|
3.7
|
27.3
|
1.0
|
CB
|
A:ASP188
|
3.9
|
26.2
|
1.0
|
ND2
|
A:ASN98
|
4.1
|
26.6
|
1.0
|
N
|
A:ASN100
|
4.1
|
28.1
|
1.0
|
CA
|
A:ASN100
|
4.2
|
27.6
|
1.0
|
CG
|
A:GLN200
|
4.3
|
29.7
|
1.0
|
N
|
A:ALA101
|
4.3
|
25.9
|
1.0
|
CA
|
A:ALA136
|
4.3
|
27.4
|
1.0
|
CB
|
A:ASP130
|
4.4
|
25.6
|
1.0
|
CB
|
A:GLN200
|
4.4
|
28.5
|
1.0
|
CB
|
A:ALA136
|
4.4
|
27.0
|
1.0
|
CB
|
A:ASN100
|
4.4
|
29.0
|
1.0
|
CA
|
A:ALA101
|
4.5
|
27.2
|
1.0
|
N
|
A:GLY137
|
4.5
|
27.6
|
1.0
|
OD1
|
A:ASP188
|
4.5
|
29.0
|
1.0
|
OD1
|
A:ASP132
|
4.6
|
26.4
|
1.0
|
CB
|
A:ASN98
|
4.6
|
26.1
|
1.0
|
CA
|
A:ASN98
|
4.7
|
26.9
|
1.0
|
CA
|
A:GLY137
|
4.7
|
29.4
|
1.0
|
C
|
A:ASN98
|
4.7
|
27.1
|
1.0
|
N
|
A:ASP132
|
4.8
|
28.6
|
1.0
|
CA
|
A:ASP132
|
4.9
|
28.8
|
1.0
|
C
|
A:ALA101
|
4.9
|
27.7
|
1.0
|
N
|
A:ASP99
|
5.0
|
27.4
|
1.0
|
|
Calcium binding site 5 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 5 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca301
b:37.5
occ:1.00
|
O
|
B:VAL2
|
2.3
|
38.4
|
1.0
|
OD1
|
B:ASN1
|
2.4
|
38.5
|
1.0
|
OD2
|
B:ASP36
|
2.4
|
42.3
|
1.0
|
OD2
|
B:ASP81
|
2.4
|
32.0
|
1.0
|
OD2
|
B:ASP34
|
2.5
|
42.1
|
1.0
|
OD2
|
B:ASP32
|
2.6
|
40.1
|
1.0
|
OD1
|
B:ASP32
|
2.6
|
41.5
|
1.0
|
CG
|
B:ASP32
|
3.0
|
42.6
|
1.0
|
CG
|
B:ASN1
|
3.3
|
37.9
|
1.0
|
C
|
B:VAL2
|
3.4
|
38.3
|
1.0
|
CG
|
B:ASP34
|
3.5
|
44.4
|
1.0
|
CG
|
B:ASP36
|
3.5
|
42.0
|
1.0
|
ND2
|
B:ASN1
|
3.5
|
36.8
|
1.0
|
CG
|
B:ASP81
|
3.5
|
32.6
|
1.0
|
CB
|
B:ASP34
|
3.8
|
45.0
|
1.0
|
N
|
B:VAL2
|
3.9
|
42.8
|
1.0
|
CB
|
B:ASP81
|
4.0
|
32.9
|
1.0
|
CB
|
B:ASP36
|
4.1
|
42.5
|
1.0
|
CA
|
B:VAL2
|
4.2
|
41.5
|
1.0
|
N
|
B:ALA3
|
4.5
|
37.8
|
1.0
|
CB
|
B:ASP32
|
4.5
|
42.2
|
1.0
|
OD1
|
B:ASP36
|
4.5
|
44.8
|
1.0
|
OD1
|
B:ASP81
|
4.6
|
31.1
|
1.0
|
N
|
B:ASP34
|
4.6
|
46.7
|
1.0
|
CD
|
B:PRO4
|
4.6
|
36.7
|
1.0
|
CB
|
B:ASN1
|
4.6
|
41.0
|
1.0
|
OD1
|
B:ASP34
|
4.7
|
47.1
|
1.0
|
CB
|
B:VAL2
|
4.7
|
42.6
|
1.0
|
N
|
B:PRO4
|
4.7
|
37.8
|
1.0
|
CA
|
B:ALA3
|
4.7
|
36.4
|
1.0
|
C
|
B:ALA3
|
4.7
|
37.0
|
1.0
|
C
|
B:ASN1
|
4.8
|
42.3
|
1.0
|
CA
|
B:ASP34
|
4.8
|
47.1
|
1.0
|
CD2
|
B:TYR83
|
4.9
|
36.3
|
1.0
|
CA
|
B:ASN1
|
5.0
|
42.6
|
1.0
|
|
Calcium binding site 6 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 6 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca302
b:53.2
occ:1.00
|
OD1
|
B:ASP66
|
2.1
|
31.7
|
1.0
|
OE1
|
B:GLU68
|
2.1
|
36.0
|
1.0
|
OE2
|
B:GLU17
|
2.2
|
29.8
|
1.0
|
OD2
|
B:ASP99
|
2.2
|
34.2
|
1.0
|
O
|
B:HOH447
|
2.3
|
31.9
|
1.0
|
O
|
B:HOH441
|
2.3
|
24.6
|
1.0
|
CG
|
B:ASP66
|
3.1
|
31.3
|
1.0
|
CD
|
B:GLU17
|
3.1
|
30.8
|
1.0
|
CG
|
B:ASP99
|
3.2
|
34.0
|
1.0
|
CD
|
B:GLU68
|
3.4
|
34.4
|
1.0
|
OD1
|
B:ASP99
|
3.5
|
31.7
|
1.0
|
OE1
|
B:GLU17
|
3.6
|
30.3
|
1.0
|
OD2
|
B:ASP66
|
3.8
|
31.8
|
1.0
|
N
|
B:TYR67
|
4.0
|
30.8
|
1.0
|
O
|
B:HOH446
|
4.1
|
28.8
|
1.0
|
CB
|
B:ASP66
|
4.1
|
30.8
|
1.0
|
N
|
B:GLU68
|
4.1
|
32.8
|
1.0
|
CA
|
B:ASP66
|
4.1
|
30.3
|
1.0
|
CA
|
B:CA303
|
4.1
|
30.8
|
1.0
|
CG
|
B:GLU68
|
4.2
|
35.4
|
1.0
|
CB
|
B:GLU68
|
4.2
|
34.7
|
1.0
|
OE2
|
B:GLU68
|
4.2
|
35.3
|
1.0
|
O
|
B:HOH444
|
4.3
|
35.5
|
1.0
|
CG
|
B:GLU17
|
4.4
|
30.9
|
1.0
|
C
|
B:ASP66
|
4.4
|
30.3
|
1.0
|
ND2
|
B:ASN100
|
4.5
|
34.3
|
1.0
|
CB
|
B:ASP99
|
4.5
|
32.8
|
1.0
|
CA
|
B:GLU68
|
4.8
|
34.0
|
1.0
|
CA
|
B:TYR67
|
4.9
|
31.0
|
1.0
|
CB
|
B:GLU17
|
4.9
|
30.4
|
1.0
|
CB
|
B:TYR67
|
4.9
|
31.7
|
1.0
|
|
Calcium binding site 7 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 7 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca303
b:30.8
occ:1.00
|
OD1
|
B:ASP96
|
2.2
|
29.1
|
1.0
|
OD1
|
B:ASP132
|
2.2
|
29.8
|
1.0
|
OD1
|
B:ASP99
|
2.3
|
31.7
|
1.0
|
OE1
|
B:GLU17
|
2.3
|
30.3
|
1.0
|
OE2
|
B:GLU68
|
2.4
|
35.3
|
1.0
|
O
|
B:ARG97
|
2.4
|
30.4
|
1.0
|
OE1
|
B:GLU68
|
3.0
|
36.0
|
1.0
|
CD
|
B:GLU68
|
3.0
|
34.4
|
1.0
|
CG
|
B:ASP99
|
3.3
|
34.0
|
1.0
|
CG
|
B:ASP132
|
3.3
|
28.5
|
1.0
|
CG
|
B:ASP96
|
3.4
|
29.4
|
1.0
|
CD
|
B:GLU17
|
3.5
|
30.8
|
1.0
|
C
|
B:ARG97
|
3.6
|
31.3
|
1.0
|
N
|
B:ARG97
|
3.8
|
31.2
|
1.0
|
OD2
|
B:ASP99
|
3.8
|
34.2
|
1.0
|
ND2
|
B:ASN100
|
3.8
|
34.3
|
1.0
|
OE2
|
B:GLU17
|
3.9
|
29.8
|
1.0
|
OD2
|
B:ASP96
|
4.0
|
29.4
|
1.0
|
N
|
B:ASP99
|
4.0
|
31.3
|
1.0
|
OD2
|
B:ASP132
|
4.1
|
29.2
|
1.0
|
CA
|
B:CA302
|
4.1
|
53.2
|
1.0
|
CB
|
B:ASP132
|
4.2
|
27.1
|
1.0
|
CA
|
B:ARG97
|
4.3
|
31.8
|
1.0
|
O
|
B:HOH407
|
4.4
|
30.0
|
1.0
|
CB
|
B:ASP99
|
4.5
|
32.8
|
1.0
|
CG
|
B:GLU68
|
4.5
|
35.4
|
1.0
|
CB
|
B:ASP96
|
4.5
|
29.8
|
1.0
|
CA
|
B:ASP132
|
4.5
|
27.3
|
1.0
|
CA
|
B:ASP96
|
4.5
|
31.0
|
1.0
|
C
|
B:ASP96
|
4.6
|
30.8
|
1.0
|
N
|
B:ASN98
|
4.6
|
30.6
|
1.0
|
CA
|
B:ASP99
|
4.7
|
31.7
|
1.0
|
CG
|
B:GLU17
|
4.7
|
30.9
|
1.0
|
CB
|
B:TYR67
|
4.7
|
31.7
|
1.0
|
CA
|
B:ASN98
|
4.8
|
30.3
|
1.0
|
N
|
B:ASN100
|
4.9
|
30.7
|
1.0
|
C
|
B:ASN98
|
5.0
|
31.3
|
1.0
|
|
Calcium binding site 8 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 8 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca304
b:27.7
occ:1.00
|
O
|
B:ASN100
|
2.2
|
32.1
|
1.0
|
O
|
B:ALA136
|
2.3
|
27.2
|
1.0
|
OD1
|
B:ASN98
|
2.4
|
28.5
|
1.0
|
OD2
|
B:ASP188
|
2.4
|
28.4
|
1.0
|
OD2
|
B:ASP130
|
2.4
|
31.5
|
1.0
|
OD2
|
B:ASP132
|
2.6
|
29.2
|
1.0
|
OD1
|
B:ASP130
|
2.6
|
31.3
|
1.0
|
CG
|
B:ASP130
|
2.8
|
31.7
|
1.0
|
C
|
B:ASN100
|
3.3
|
31.9
|
1.0
|
CG
|
B:ASP188
|
3.4
|
27.2
|
1.0
|
CG
|
B:ASN98
|
3.5
|
29.7
|
1.0
|
CG
|
B:ASP132
|
3.5
|
28.5
|
1.0
|
C
|
B:ALA136
|
3.5
|
29.0
|
1.0
|
CB
|
B:ASP132
|
3.8
|
27.1
|
1.0
|
CB
|
B:ASP188
|
3.8
|
27.0
|
1.0
|
ND2
|
B:ASN98
|
4.1
|
28.8
|
1.0
|
CA
|
B:ASN100
|
4.2
|
31.8
|
1.0
|
N
|
B:ASN100
|
4.2
|
30.7
|
1.0
|
N
|
B:ALA101
|
4.3
|
30.3
|
1.0
|
CG
|
B:GLN200
|
4.3
|
34.8
|
1.0
|
CB
|
B:ASP130
|
4.3
|
30.7
|
1.0
|
CB
|
B:GLN200
|
4.3
|
34.3
|
1.0
|
CA
|
B:ALA136
|
4.4
|
29.1
|
1.0
|
CA
|
B:ALA101
|
4.4
|
31.7
|
1.0
|
CB
|
B:ASN100
|
4.4
|
32.9
|
1.0
|
CB
|
B:ALA136
|
4.5
|
29.0
|
1.0
|
OD1
|
B:ASP188
|
4.5
|
29.2
|
1.0
|
N
|
B:GLY137
|
4.5
|
29.9
|
1.0
|
OD1
|
B:ASP132
|
4.7
|
29.8
|
1.0
|
CA
|
B:GLY137
|
4.7
|
32.5
|
1.0
|
CB
|
B:ASN98
|
4.7
|
29.8
|
1.0
|
CA
|
B:ASN98
|
4.8
|
30.3
|
1.0
|
N
|
B:ASP132
|
4.8
|
26.9
|
1.0
|
C
|
B:ALA101
|
4.9
|
32.4
|
1.0
|
C
|
B:ASN98
|
4.9
|
31.3
|
1.0
|
CA
|
B:ASP132
|
5.0
|
27.3
|
1.0
|
CD
|
B:PRO102
|
5.0
|
31.8
|
1.0
|
|
Calcium binding site 9 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 9 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca301
b:31.4
occ:1.00
|
OD2
|
C:ASP36
|
2.3
|
37.1
|
1.0
|
O
|
C:VAL2
|
2.4
|
35.5
|
1.0
|
OD1
|
C:ASN1
|
2.4
|
32.0
|
1.0
|
OD2
|
C:ASP81
|
2.4
|
28.4
|
1.0
|
OD2
|
C:ASP34
|
2.5
|
39.9
|
1.0
|
OD2
|
C:ASP32
|
2.5
|
33.1
|
1.0
|
OD1
|
C:ASP32
|
2.6
|
32.9
|
1.0
|
CG
|
C:ASP32
|
2.9
|
34.1
|
1.0
|
CG
|
C:ASN1
|
3.3
|
33.2
|
1.0
|
CG
|
C:ASP36
|
3.5
|
39.2
|
1.0
|
CG
|
C:ASP81
|
3.5
|
28.4
|
1.0
|
C
|
C:VAL2
|
3.5
|
35.2
|
1.0
|
CG
|
C:ASP34
|
3.6
|
41.2
|
1.0
|
ND2
|
C:ASN1
|
3.6
|
31.2
|
1.0
|
CB
|
C:ASP34
|
3.8
|
40.8
|
1.0
|
CB
|
C:ASP81
|
3.9
|
28.2
|
1.0
|
N
|
C:VAL2
|
4.0
|
35.9
|
1.0
|
CB
|
C:ASP36
|
4.1
|
36.4
|
1.0
|
CA
|
C:VAL2
|
4.3
|
37.0
|
1.0
|
CB
|
C:ASP32
|
4.5
|
35.8
|
1.0
|
OD1
|
C:ASP36
|
4.5
|
41.6
|
1.0
|
OD1
|
C:ASP81
|
4.5
|
28.9
|
1.0
|
N
|
C:ALA3
|
4.6
|
34.1
|
1.0
|
N
|
C:ASP34
|
4.6
|
39.5
|
1.0
|
CD
|
C:PRO4
|
4.6
|
31.2
|
1.0
|
OD1
|
C:ASP34
|
4.7
|
44.3
|
1.0
|
CB
|
C:ASN1
|
4.7
|
34.9
|
1.0
|
N
|
C:PRO4
|
4.7
|
32.6
|
1.0
|
CB
|
C:VAL2
|
4.8
|
38.2
|
1.0
|
CA
|
C:ALA3
|
4.8
|
32.0
|
1.0
|
C
|
C:ALA3
|
4.8
|
32.1
|
1.0
|
CA
|
C:ASP34
|
4.8
|
40.3
|
1.0
|
CD2
|
C:TYR83
|
4.9
|
34.2
|
1.0
|
C
|
C:ASN1
|
4.9
|
36.9
|
1.0
|
|
Calcium binding site 10 out
of 16 in 5czr
Go back to
Calcium Binding Sites List in 5czr
Calcium binding site 10 out
of 16 in the Crystal Structure of Human Protocadherin-24 EC1-2
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Crystal Structure of Human Protocadherin-24 EC1-2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca302
b:48.3
occ:1.00
|
OD1
|
C:ASP66
|
2.2
|
44.1
|
1.0
|
OE2
|
C:GLU17
|
2.2
|
35.8
|
1.0
|
OD2
|
C:ASP99
|
2.2
|
38.0
|
1.0
|
OE1
|
C:GLU68
|
2.2
|
43.0
|
1.0
|
O
|
C:HOH434
|
2.3
|
31.8
|
1.0
|
O
|
C:HOH454
|
2.6
|
33.2
|
1.0
|
CG
|
C:ASP66
|
3.1
|
44.1
|
1.0
|
CD
|
C:GLU17
|
3.2
|
36.2
|
1.0
|
CG
|
C:ASP99
|
3.2
|
37.9
|
1.0
|
CD
|
C:GLU68
|
3.5
|
42.8
|
1.0
|
OD1
|
C:ASP99
|
3.5
|
39.1
|
1.0
|
OE1
|
C:GLU17
|
3.7
|
35.5
|
1.0
|
OD2
|
C:ASP66
|
3.8
|
47.8
|
1.0
|
O
|
C:HOH422
|
4.0
|
34.3
|
1.0
|
CB
|
C:ASP66
|
4.1
|
41.6
|
1.0
|
CA
|
C:ASP66
|
4.1
|
39.1
|
1.0
|
N
|
C:TYR67
|
4.1
|
38.1
|
1.0
|
O
|
C:HOH436
|
4.2
|
36.5
|
1.0
|
CA
|
C:CA303
|
4.2
|
39.2
|
1.0
|
N
|
C:GLU68
|
4.3
|
41.9
|
1.0
|
CG
|
C:GLU68
|
4.3
|
43.9
|
1.0
|
CB
|
C:GLU68
|
4.3
|
44.0
|
1.0
|
OE2
|
C:GLU68
|
4.3
|
38.6
|
1.0
|
CG
|
C:GLU17
|
4.4
|
36.3
|
1.0
|
C
|
C:ASP66
|
4.4
|
38.9
|
1.0
|
ND2
|
C:ASN100
|
4.5
|
41.5
|
1.0
|
CB
|
C:ASP99
|
4.5
|
37.0
|
1.0
|
CB
|
C:GLU17
|
4.9
|
35.0
|
1.0
|
CA
|
C:GLU68
|
5.0
|
45.0
|
1.0
|
|
Reference:
Z.R.Johnson,
M.Sotomayor.
Crystal Structure of Human Protocadherin-24 EC1-2 To Be Published.
Page generated: Sun Jul 14 17:38:08 2024
|