Calcium in PDB 4zpq: Crystal Structure of Protocadherin Gamma C5 EC1-3
Protein crystallography data
The structure of Crystal Structure of Protocadherin Gamma C5 EC1-3, PDB code: 4zpq
was solved by
H.N.Wolcott,
K.M.Goodman,
F.Bahna,
S.Mannepalli,
L.Shapiro,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
29.19 /
3.10
|
Space group
|
C 1 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
190.806,
104.916,
80.066,
90.00,
97.03,
90.00
|
R / Rfree (%)
|
21.5 /
25.2
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
18;
Binding sites:
The binding sites of Calcium atom in the Crystal Structure of Protocadherin Gamma C5 EC1-3
(pdb code 4zpq). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 18 binding sites of Calcium where determined in the
Crystal Structure of Protocadherin Gamma C5 EC1-3, PDB code: 4zpq:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 1 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca401
b:51.9
occ:1.00
|
OD2
|
A:ASP295
|
2.4
|
87.7
|
1.0
|
OD2
|
A:ASP239
|
2.4
|
65.2
|
1.0
|
O
|
A:ASN209
|
2.4
|
61.1
|
1.0
|
OD2
|
A:ASP241
|
2.4
|
61.9
|
1.0
|
O
|
A:ASN245
|
2.4
|
62.9
|
1.0
|
OD1
|
A:ASP239
|
2.5
|
70.6
|
1.0
|
OD1
|
A:ASN207
|
2.6
|
55.9
|
1.0
|
CG
|
A:ASP239
|
2.8
|
60.8
|
1.0
|
CG
|
A:ASP295
|
3.3
|
87.2
|
1.0
|
CG
|
A:ASP241
|
3.4
|
63.5
|
1.0
|
C
|
A:ASN209
|
3.5
|
60.9
|
1.0
|
CB
|
A:ASP241
|
3.6
|
66.3
|
1.0
|
OD1
|
A:ASP295
|
3.6
|
0.5
|
1.0
|
C
|
A:ASN245
|
3.6
|
65.5
|
1.0
|
CG
|
A:ASN207
|
3.7
|
56.8
|
1.0
|
CB
|
A:ASP239
|
4.2
|
63.8
|
1.0
|
ND2
|
A:ASN207
|
4.3
|
76.7
|
1.0
|
CA
|
A:ASN209
|
4.3
|
51.5
|
1.0
|
CB
|
A:ASN209
|
4.4
|
56.5
|
1.0
|
N
|
A:ASN209
|
4.4
|
51.1
|
1.0
|
CA
|
A:ASN245
|
4.4
|
65.9
|
1.0
|
CB
|
A:ASP295
|
4.5
|
60.6
|
1.0
|
CB
|
A:ASN245
|
4.5
|
69.8
|
1.0
|
N
|
A:ALA210
|
4.5
|
65.3
|
1.0
|
OD1
|
A:ASP241
|
4.5
|
56.8
|
1.0
|
N
|
A:GLY246
|
4.6
|
83.1
|
1.0
|
CA
|
A:ALA210
|
4.7
|
52.7
|
1.0
|
CA
|
A:GLY246
|
4.7
|
78.8
|
1.0
|
N
|
A:ASP241
|
4.8
|
62.9
|
1.0
|
CB
|
A:MET301
|
4.8
|
58.8
|
1.0
|
CA
|
A:ASP241
|
4.8
|
63.0
|
1.0
|
CB
|
A:ASN207
|
4.9
|
56.5
|
1.0
|
CD
|
A:PRO211
|
4.9
|
56.2
|
1.0
|
CA
|
A:ASN207
|
4.9
|
55.0
|
1.0
|
CG
|
A:MET301
|
4.9
|
52.6
|
1.0
|
C
|
A:ALA210
|
5.0
|
54.0
|
1.0
|
|
Calcium binding site 2 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 2 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca402
b:29.0
occ:1.00
|
OE2
|
A:GLU115
|
2.3
|
72.2
|
1.0
|
OD1
|
A:ASP172
|
2.4
|
67.8
|
1.0
|
OD2
|
A:ASP208
|
2.5
|
96.5
|
1.0
|
OE2
|
A:GLU174
|
2.9
|
45.0
|
1.0
|
OD1
|
A:ASP208
|
3.0
|
51.3
|
1.0
|
CG
|
A:ASP208
|
3.0
|
60.6
|
1.0
|
CG
|
A:ASP172
|
3.3
|
59.9
|
1.0
|
CD
|
A:GLU115
|
3.3
|
68.0
|
1.0
|
OD1
|
A:ASN209
|
3.9
|
84.1
|
1.0
|
CG
|
A:GLU115
|
4.0
|
41.6
|
1.0
|
CA
|
A:ASP172
|
4.0
|
41.2
|
1.0
|
CB
|
A:ASP172
|
4.0
|
45.9
|
1.0
|
OD2
|
A:ASP172
|
4.0
|
55.2
|
1.0
|
CD
|
A:GLU174
|
4.1
|
52.8
|
1.0
|
OE1
|
A:GLU115
|
4.2
|
37.9
|
1.0
|
CA
|
A:CA403
|
4.3
|
52.3
|
1.0
|
CB
|
A:ASP208
|
4.4
|
48.8
|
1.0
|
N
|
A:ARG173
|
4.4
|
48.3
|
1.0
|
O
|
A:LEU171
|
4.5
|
51.4
|
1.0
|
C
|
A:ASP172
|
4.6
|
50.3
|
1.0
|
OE1
|
A:GLU174
|
4.9
|
54.0
|
1.0
|
N
|
A:GLU174
|
4.9
|
45.9
|
1.0
|
|
Calcium binding site 3 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 3 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca403
b:52.3
occ:1.00
|
OD1
|
A:ASP241
|
2.5
|
56.8
|
1.0
|
OE1
|
A:GLU115
|
2.5
|
37.9
|
1.0
|
OE1
|
A:GLU174
|
2.5
|
54.0
|
1.0
|
OD1
|
A:ASP205
|
2.5
|
57.9
|
1.0
|
OD1
|
A:ASP208
|
2.5
|
51.3
|
1.0
|
O
|
A:VAL206
|
2.6
|
55.2
|
1.0
|
OE2
|
A:GLU174
|
3.0
|
45.0
|
1.0
|
CD
|
A:GLU174
|
3.1
|
52.8
|
1.0
|
OE2
|
A:GLU115
|
3.2
|
72.2
|
1.0
|
CD
|
A:GLU115
|
3.2
|
68.0
|
1.0
|
CG
|
A:ASP241
|
3.6
|
63.5
|
1.0
|
C
|
A:VAL206
|
3.7
|
44.5
|
1.0
|
CG
|
A:ASP208
|
3.7
|
60.6
|
1.0
|
CG
|
A:ASP205
|
3.7
|
76.5
|
1.0
|
N
|
A:VAL206
|
3.8
|
67.5
|
1.0
|
OD1
|
A:ASN209
|
4.1
|
84.1
|
1.0
|
CA
|
A:CA402
|
4.3
|
29.0
|
1.0
|
N
|
A:ASP208
|
4.3
|
63.5
|
1.0
|
CA
|
A:VAL206
|
4.4
|
47.5
|
1.0
|
OD2
|
A:ASP241
|
4.4
|
61.9
|
1.0
|
OD2
|
A:ASP208
|
4.4
|
96.5
|
1.0
|
CB
|
A:ASP241
|
4.4
|
66.3
|
1.0
|
OD2
|
A:ASP205
|
4.4
|
84.8
|
1.0
|
NH1
|
A:ARG173
|
4.4
|
65.0
|
1.0
|
CA
|
A:ASP241
|
4.6
|
63.0
|
1.0
|
CG
|
A:GLU174
|
4.6
|
51.1
|
1.0
|
CG
|
A:GLU115
|
4.6
|
41.6
|
1.0
|
CB
|
A:ARG173
|
4.6
|
40.3
|
1.0
|
CA
|
A:ASP205
|
4.7
|
63.0
|
1.0
|
C
|
A:ASP205
|
4.7
|
62.5
|
1.0
|
N
|
A:ASN207
|
4.8
|
55.4
|
1.0
|
CD
|
A:ARG173
|
4.8
|
44.1
|
1.0
|
CB
|
A:ASP208
|
4.8
|
48.8
|
1.0
|
CB
|
A:ASP205
|
4.8
|
78.6
|
1.0
|
CA
|
A:ASN207
|
5.0
|
55.0
|
1.0
|
|
Calcium binding site 4 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 4 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca404
b:77.7
occ:1.00
|
O
|
A:ASN136
|
2.3
|
29.5
|
1.0
|
O
|
A:ASN100
|
2.3
|
30.8
|
1.0
|
OD2
|
A:ASP132
|
2.4
|
63.8
|
1.0
|
OD2
|
A:ASP130
|
2.4
|
50.9
|
1.0
|
OD1
|
A:ASN98
|
2.5
|
38.5
|
1.0
|
OD2
|
A:ASP187
|
2.9
|
48.0
|
1.0
|
OD1
|
A:ASP130
|
3.0
|
61.1
|
1.0
|
CG
|
A:ASP130
|
3.0
|
48.5
|
1.0
|
CG
|
A:ASP132
|
3.4
|
40.7
|
1.0
|
C
|
A:ASN100
|
3.5
|
32.1
|
1.0
|
C
|
A:ASN136
|
3.5
|
48.0
|
1.0
|
CG
|
A:ASN98
|
3.7
|
49.3
|
1.0
|
CB
|
A:ASP132
|
3.7
|
33.6
|
1.0
|
CG
|
A:ASP187
|
3.8
|
53.8
|
1.0
|
CB
|
A:ASP187
|
4.0
|
42.1
|
1.0
|
CA
|
A:ASN100
|
4.2
|
34.1
|
1.0
|
N
|
A:ASN100
|
4.2
|
44.7
|
1.0
|
CB
|
A:ASN100
|
4.3
|
34.2
|
1.0
|
CD
|
A:ARG193
|
4.4
|
61.1
|
1.0
|
ND2
|
A:ASN98
|
4.4
|
75.6
|
1.0
|
CA
|
A:ASN136
|
4.4
|
31.8
|
1.0
|
CB
|
A:ASN136
|
4.5
|
33.0
|
1.0
|
N
|
A:THR137
|
4.5
|
41.6
|
1.0
|
N
|
A:SER101
|
4.5
|
51.8
|
1.0
|
OD1
|
A:ASP132
|
4.5
|
37.3
|
1.0
|
CB
|
A:ASP130
|
4.5
|
34.7
|
1.0
|
CA
|
A:THR137
|
4.6
|
31.7
|
1.0
|
CA
|
A:SER101
|
4.7
|
30.7
|
1.0
|
CA
|
A:ASN98
|
4.7
|
34.7
|
1.0
|
CB
|
A:ASN98
|
4.8
|
34.0
|
1.0
|
C
|
A:ASN98
|
4.8
|
39.8
|
1.0
|
CD
|
A:PRO102
|
4.8
|
40.0
|
1.0
|
OD1
|
A:ASP187
|
4.9
|
63.0
|
1.0
|
CG
|
A:ARG193
|
5.0
|
48.6
|
1.0
|
|
Calcium binding site 5 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 5 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca405
b:65.8
occ:1.00
|
OD1
|
A:ASP96
|
2.4
|
36.4
|
1.0
|
OD1
|
A:ASP132
|
2.5
|
37.3
|
1.0
|
O
|
A:LEU97
|
2.5
|
60.9
|
1.0
|
OE1
|
A:GLU64
|
2.5
|
54.6
|
1.0
|
OE1
|
A:GLU8
|
2.6
|
54.6
|
1.0
|
OE2
|
A:GLU64
|
2.6
|
50.0
|
1.0
|
OD1
|
A:ASP99
|
2.7
|
61.6
|
1.0
|
CD
|
A:GLU64
|
2.9
|
32.5
|
1.0
|
CD
|
A:GLU8
|
3.4
|
44.1
|
1.0
|
CG
|
A:ASP132
|
3.5
|
40.7
|
1.0
|
OE2
|
A:GLU8
|
3.5
|
30.2
|
1.0
|
C
|
A:LEU97
|
3.6
|
53.2
|
1.0
|
CG
|
A:ASP96
|
3.6
|
48.1
|
1.0
|
N
|
A:LEU97
|
3.7
|
46.0
|
1.0
|
ND2
|
A:ASN100
|
3.8
|
38.0
|
1.0
|
CG
|
A:ASP99
|
3.8
|
53.8
|
1.0
|
CA
|
A:LEU97
|
4.2
|
40.5
|
1.0
|
CB
|
A:ASP132
|
4.2
|
33.6
|
1.0
|
OD2
|
A:ASP99
|
4.2
|
48.1
|
1.0
|
OD2
|
A:ASP96
|
4.2
|
61.0
|
1.0
|
CA
|
A:ASP132
|
4.3
|
34.8
|
1.0
|
CG
|
A:GLU64
|
4.3
|
33.1
|
1.0
|
OD2
|
A:ASP132
|
4.3
|
63.8
|
1.0
|
NE
|
A:ARG63
|
4.4
|
38.9
|
1.0
|
CA
|
A:CA406
|
4.4
|
46.5
|
1.0
|
N
|
A:ASP99
|
4.5
|
36.1
|
1.0
|
C
|
A:ASP96
|
4.6
|
50.8
|
1.0
|
CB
|
A:LEU97
|
4.7
|
43.1
|
1.0
|
N
|
A:ASN98
|
4.7
|
48.7
|
1.0
|
CA
|
A:ASP96
|
4.8
|
52.6
|
1.0
|
CB
|
A:ASP96
|
4.8
|
56.4
|
1.0
|
NH2
|
A:ARG63
|
4.8
|
39.2
|
1.0
|
CG
|
A:GLU8
|
4.9
|
58.9
|
1.0
|
CA
|
A:ASN98
|
5.0
|
34.7
|
1.0
|
CG
|
A:ASN100
|
5.0
|
36.9
|
1.0
|
|
Calcium binding site 6 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 6 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca406
b:46.5
occ:1.00
|
OE2
|
A:GLU8
|
2.4
|
30.2
|
1.0
|
OD2
|
A:ASP99
|
2.4
|
48.1
|
1.0
|
OD1
|
A:ASP62
|
2.4
|
50.0
|
1.0
|
OE2
|
A:GLU64
|
2.6
|
50.0
|
1.0
|
OE2
|
A:GLU9
|
2.7
|
57.8
|
1.0
|
NH2
|
B:ARG193
|
3.1
|
58.6
|
1.0
|
CG
|
A:ASP99
|
3.3
|
53.8
|
1.0
|
CG
|
A:ASP62
|
3.5
|
42.8
|
1.0
|
ND2
|
A:ASN100
|
3.6
|
38.0
|
1.0
|
CD
|
A:GLU8
|
3.6
|
44.1
|
1.0
|
OD1
|
A:ASP99
|
3.6
|
61.6
|
1.0
|
OG
|
B:SER101
|
3.7
|
48.4
|
1.0
|
CD
|
A:GLU9
|
3.8
|
44.4
|
1.0
|
CD
|
A:GLU64
|
3.8
|
32.5
|
1.0
|
O
|
B:ASP99
|
3.9
|
53.8
|
1.0
|
OD2
|
A:ASP62
|
4.0
|
34.8
|
1.0
|
CZ
|
B:ARG193
|
4.2
|
42.3
|
1.0
|
CG
|
A:GLU9
|
4.2
|
38.4
|
1.0
|
OE1
|
A:GLU8
|
4.3
|
54.6
|
1.0
|
CA
|
A:CA405
|
4.4
|
65.8
|
1.0
|
CB
|
A:GLU64
|
4.4
|
33.5
|
1.0
|
CG
|
A:GLU64
|
4.4
|
33.1
|
1.0
|
NE
|
B:ARG193
|
4.5
|
56.6
|
1.0
|
CB
|
A:ASP62
|
4.5
|
32.2
|
1.0
|
CG
|
A:ASN100
|
4.6
|
36.9
|
1.0
|
CB
|
A:ASP99
|
4.7
|
60.0
|
1.0
|
CG
|
A:GLU8
|
4.7
|
58.9
|
1.0
|
OD1
|
A:ASN100
|
4.8
|
41.3
|
1.0
|
OE1
|
A:GLU9
|
4.8
|
37.7
|
1.0
|
CA
|
A:ASP62
|
4.8
|
32.0
|
1.0
|
OE1
|
A:GLU64
|
4.8
|
54.6
|
1.0
|
CB
|
B:SER101
|
4.8
|
44.5
|
1.0
|
N
|
A:GLU64
|
4.9
|
39.0
|
1.0
|
C
|
B:ASP99
|
4.9
|
38.8
|
1.0
|
|
Calcium binding site 7 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 7 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca401
b:44.9
occ:1.00
|
OD2
|
B:ASP295
|
2.3
|
64.0
|
1.0
|
O
|
B:ASN209
|
2.4
|
46.9
|
1.0
|
OD2
|
B:ASP239
|
2.4
|
40.4
|
1.0
|
O
|
B:ASN245
|
2.4
|
42.6
|
1.0
|
OD2
|
B:ASP241
|
2.4
|
39.3
|
1.0
|
OD1
|
B:ASP239
|
2.5
|
56.6
|
1.0
|
OD1
|
B:ASN207
|
2.6
|
60.3
|
1.0
|
CG
|
B:ASP239
|
2.7
|
48.6
|
1.0
|
CG
|
B:ASP295
|
3.2
|
73.9
|
1.0
|
CG
|
B:ASP241
|
3.4
|
39.2
|
1.0
|
C
|
B:ASN209
|
3.5
|
47.2
|
1.0
|
OD1
|
B:ASP295
|
3.5
|
0.5
|
1.0
|
C
|
B:ASN245
|
3.6
|
44.8
|
1.0
|
CB
|
B:ASP241
|
3.7
|
43.2
|
1.0
|
CG
|
B:ASN207
|
3.7
|
61.0
|
1.0
|
CB
|
B:ASP239
|
4.2
|
47.0
|
1.0
|
ND2
|
B:ASN207
|
4.2
|
86.2
|
1.0
|
CA
|
B:ASN209
|
4.3
|
39.8
|
1.0
|
CB
|
B:ASN209
|
4.3
|
39.7
|
1.0
|
N
|
B:ASN209
|
4.4
|
50.1
|
1.0
|
CA
|
B:ASN245
|
4.4
|
62.1
|
1.0
|
CB
|
B:ASP295
|
4.4
|
47.7
|
1.0
|
N
|
B:ALA210
|
4.5
|
58.2
|
1.0
|
OD1
|
B:ASP241
|
4.5
|
46.7
|
1.0
|
CB
|
B:ASN245
|
4.6
|
62.8
|
1.0
|
N
|
B:GLY246
|
4.6
|
62.3
|
1.0
|
CA
|
B:ALA210
|
4.6
|
38.2
|
1.0
|
CA
|
B:GLY246
|
4.7
|
60.4
|
1.0
|
CB
|
B:MET301
|
4.7
|
62.8
|
1.0
|
CG
|
B:MET301
|
4.8
|
58.1
|
1.0
|
CD
|
B:PRO211
|
4.8
|
49.6
|
1.0
|
CB
|
B:ASN207
|
4.8
|
56.7
|
1.0
|
N
|
B:ASP241
|
4.8
|
43.8
|
1.0
|
CA
|
B:ASP241
|
4.9
|
40.1
|
1.0
|
CA
|
B:ASN207
|
4.9
|
64.6
|
1.0
|
C
|
B:ALA210
|
4.9
|
38.0
|
1.0
|
|
Calcium binding site 8 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 8 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca402
b:51.2
occ:1.00
|
OD1
|
B:ASP172
|
2.4
|
57.0
|
1.0
|
OD2
|
B:ASP208
|
2.5
|
0.4
|
1.0
|
OE1
|
B:GLU115
|
2.6
|
54.7
|
1.0
|
OD1
|
B:ASP208
|
2.8
|
36.9
|
1.0
|
OE2
|
B:GLU174
|
2.8
|
44.1
|
1.0
|
CG
|
B:ASP208
|
2.9
|
74.8
|
1.0
|
CG
|
B:ASP172
|
3.3
|
56.9
|
1.0
|
CD
|
B:GLU115
|
3.5
|
50.2
|
1.0
|
OD2
|
B:ASP172
|
4.0
|
73.5
|
1.0
|
CD
|
B:GLU174
|
4.1
|
44.5
|
1.0
|
OE2
|
B:GLU115
|
4.1
|
49.0
|
1.0
|
CB
|
B:ASP172
|
4.1
|
42.4
|
1.0
|
CA
|
B:ASP172
|
4.1
|
40.0
|
1.0
|
CB
|
B:ASP208
|
4.2
|
57.5
|
1.0
|
OD1
|
B:ASN209
|
4.2
|
79.8
|
1.0
|
CA
|
B:CA403
|
4.2
|
46.5
|
1.0
|
N
|
B:ARG173
|
4.5
|
38.5
|
1.0
|
CG
|
B:GLU115
|
4.6
|
44.1
|
1.0
|
O
|
B:LEU171
|
4.7
|
68.6
|
1.0
|
C
|
B:ASP172
|
4.7
|
52.1
|
1.0
|
OE1
|
B:GLU174
|
4.9
|
44.1
|
1.0
|
N
|
B:GLU174
|
4.9
|
41.7
|
1.0
|
CB
|
B:GLU174
|
4.9
|
63.0
|
1.0
|
CG
|
B:GLU174
|
5.0
|
51.0
|
1.0
|
|
Calcium binding site 9 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 9 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca403
b:46.5
occ:1.00
|
OE1
|
B:GLU174
|
2.4
|
44.1
|
1.0
|
OE2
|
B:GLU115
|
2.4
|
49.0
|
1.0
|
OD1
|
B:ASP241
|
2.5
|
46.7
|
1.0
|
O
|
B:VAL206
|
2.5
|
60.4
|
1.0
|
OD1
|
B:ASP208
|
2.5
|
36.9
|
1.0
|
OD1
|
B:ASP205
|
2.5
|
64.5
|
1.0
|
OE2
|
B:GLU174
|
2.8
|
44.1
|
1.0
|
CD
|
B:GLU174
|
2.9
|
44.5
|
1.0
|
CD
|
B:GLU115
|
3.3
|
50.2
|
1.0
|
OE1
|
B:GLU115
|
3.5
|
54.7
|
1.0
|
CG
|
B:ASP241
|
3.5
|
39.2
|
1.0
|
C
|
B:VAL206
|
3.6
|
50.2
|
1.0
|
N
|
B:VAL206
|
3.7
|
52.1
|
1.0
|
CG
|
B:ASP208
|
3.7
|
74.8
|
1.0
|
CG
|
B:ASP205
|
3.7
|
54.6
|
1.0
|
OD1
|
B:ASN209
|
4.2
|
79.8
|
1.0
|
CA
|
B:CA402
|
4.2
|
51.2
|
1.0
|
N
|
B:ASP208
|
4.2
|
41.8
|
1.0
|
CA
|
B:VAL206
|
4.3
|
44.4
|
1.0
|
CB
|
B:ASP241
|
4.3
|
43.2
|
1.0
|
OD2
|
B:ASP241
|
4.3
|
39.3
|
1.0
|
CG
|
B:GLU174
|
4.4
|
51.0
|
1.0
|
OD2
|
B:ASP208
|
4.4
|
0.4
|
1.0
|
OD2
|
B:ASP205
|
4.4
|
57.3
|
1.0
|
NH1
|
B:ARG173
|
4.5
|
43.1
|
1.0
|
CA
|
B:ASP241
|
4.5
|
40.1
|
1.0
|
N
|
B:ASN207
|
4.6
|
56.4
|
1.0
|
C
|
B:ASP205
|
4.6
|
41.4
|
1.0
|
CA
|
B:ASP205
|
4.6
|
39.9
|
1.0
|
CG
|
B:GLU115
|
4.7
|
44.1
|
1.0
|
CB
|
B:ASP208
|
4.7
|
57.5
|
1.0
|
CB
|
B:ASP205
|
4.8
|
48.0
|
1.0
|
CB
|
B:ARG173
|
4.8
|
45.0
|
1.0
|
CA
|
B:ASN207
|
4.8
|
64.6
|
1.0
|
CB
|
B:VAL206
|
5.0
|
44.5
|
1.0
|
CD
|
B:ARG173
|
5.0
|
39.4
|
1.0
|
CA
|
B:ASP208
|
5.0
|
52.9
|
1.0
|
|
Calcium binding site 10 out
of 18 in 4zpq
Go back to
Calcium Binding Sites List in 4zpq
Calcium binding site 10 out
of 18 in the Crystal Structure of Protocadherin Gamma C5 EC1-3
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 Protocadherin Gamma C5 EC1-3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca404
b:37.1
occ:1.00
|
O
|
B:ASN100
|
2.4
|
39.5
|
1.0
|
O
|
B:ASN136
|
2.4
|
32.7
|
1.0
|
OD2
|
B:ASP130
|
2.4
|
65.0
|
1.0
|
OD1
|
B:ASN98
|
2.5
|
60.0
|
1.0
|
OD2
|
B:ASP132
|
2.5
|
34.5
|
1.0
|
OD2
|
B:ASP187
|
2.7
|
45.0
|
1.0
|
OD1
|
B:ASP130
|
3.0
|
70.2
|
1.0
|
CG
|
B:ASP130
|
3.0
|
65.2
|
1.0
|
CG
|
B:ASP132
|
3.5
|
49.4
|
1.0
|
C
|
B:ASN100
|
3.5
|
33.8
|
1.0
|
C
|
B:ASN136
|
3.6
|
50.6
|
1.0
|
CG
|
B:ASN98
|
3.6
|
45.3
|
1.0
|
CG
|
B:ASP187
|
3.7
|
56.6
|
1.0
|
CB
|
B:ASP132
|
3.8
|
44.4
|
1.0
|
CB
|
B:ASP187
|
4.0
|
42.0
|
1.0
|
CD
|
B:ARG193
|
4.3
|
42.0
|
1.0
|
CA
|
B:ASN100
|
4.3
|
40.3
|
1.0
|
ND2
|
B:ASN98
|
4.3
|
64.8
|
1.0
|
N
|
B:ASN100
|
4.4
|
48.7
|
1.0
|
CA
|
B:ASN136
|
4.4
|
43.6
|
1.0
|
CB
|
B:ASN136
|
4.4
|
38.4
|
1.0
|
CB
|
B:ASN100
|
4.4
|
35.0
|
1.0
|
CB
|
B:ASP130
|
4.5
|
62.4
|
1.0
|
N
|
B:SER101
|
4.5
|
34.5
|
1.0
|
N
|
B:THR137
|
4.6
|
49.4
|
1.0
|
OD1
|
B:ASP132
|
4.6
|
42.5
|
1.0
|
CA
|
B:THR137
|
4.6
|
43.9
|
1.0
|
CA
|
B:SER101
|
4.7
|
38.8
|
1.0
|
CA
|
B:ASN98
|
4.7
|
38.4
|
1.0
|
CB
|
B:ASN98
|
4.8
|
38.3
|
1.0
|
OD1
|
B:ASP187
|
4.8
|
62.2
|
1.0
|
CD
|
B:PRO102
|
4.8
|
55.0
|
1.0
|
C
|
B:ASN98
|
4.9
|
40.6
|
1.0
|
CG
|
B:ARG193
|
4.9
|
38.4
|
1.0
|
|
Reference:
R.Rubinstein,
C.A.Thu,
K.M.Goodman,
H.N.Wolcott,
F.Bahna,
S.Mannepalli,
G.Ahlsen,
M.Chevee,
A.Halim,
H.Clausen,
T.Maniatis,
L.Shapiro,
B.Honig.
Molecular Logic of Neuronal Self-Recognition Through Protocadherin Domain Interactions. Cell V. 163 629 2015.
ISSN: ISSN 1097-4172
PubMed: 26478182
DOI: 10.1016/J.CELL.2015.09.026
Page generated: Sun Jul 14 15:59:55 2024
|