Calcium in PDB 2y5i: S100Z From Zebrafish in Complex with Calcium
Protein crystallography data
The structure of S100Z From Zebrafish in Complex with Calcium, PDB code: 2y5i
was solved by
O.V.Moroz,
I.B.Bronstein,
K.S.Wilson,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
66.13 /
2.03
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
75.611,
132.250,
58.209,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
17.092 /
22.677
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Calcium atom in the S100Z From Zebrafish in Complex with Calcium
(pdb code 2y5i). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the
S100Z From Zebrafish in Complex with Calcium, PDB code: 2y5i:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 1 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca101
b:13.9
occ:1.00
|
O
|
A:SER20
|
2.3
|
15.3
|
1.0
|
O
|
A:GLU23
|
2.3
|
16.4
|
1.0
|
OE1
|
A:GLU33
|
2.3
|
14.1
|
1.0
|
O
|
A:LYS28
|
2.4
|
15.6
|
1.0
|
O
|
A:HOH2076
|
2.4
|
11.1
|
1.0
|
O
|
A:ASP25
|
2.4
|
17.2
|
1.0
|
OE2
|
A:GLU33
|
2.8
|
15.5
|
1.0
|
CD
|
A:GLU33
|
2.9
|
15.0
|
1.0
|
C
|
A:SER20
|
3.4
|
15.2
|
1.0
|
C
|
A:GLU23
|
3.6
|
17.8
|
1.0
|
C
|
A:ASP25
|
3.6
|
18.4
|
1.0
|
C
|
A:LYS28
|
3.6
|
15.0
|
1.0
|
CA
|
A:SER20
|
4.0
|
14.4
|
1.0
|
C
|
A:GLY24
|
4.1
|
18.6
|
1.0
|
N
|
A:GLU23
|
4.2
|
17.8
|
1.0
|
N
|
A:ASP25
|
4.2
|
18.9
|
1.0
|
N
|
A:SER30
|
4.3
|
14.8
|
1.0
|
O
|
A:GLY24
|
4.3
|
18.8
|
1.0
|
CA
|
A:ASP25
|
4.4
|
19.0
|
1.0
|
N
|
A:GLY21
|
4.4
|
15.8
|
1.0
|
CA
|
A:LEU29
|
4.4
|
14.0
|
1.0
|
CG
|
A:GLU33
|
4.5
|
15.3
|
1.0
|
CA
|
A:GLU23
|
4.5
|
18.6
|
1.0
|
N
|
A:LYS28
|
4.5
|
15.9
|
1.0
|
N
|
A:LEU29
|
4.5
|
14.2
|
1.0
|
N
|
A:GLY24
|
4.5
|
18.9
|
1.0
|
N
|
A:LYS26
|
4.5
|
19.1
|
1.0
|
CA
|
A:GLY24
|
4.5
|
18.9
|
1.0
|
OE1
|
A:GLU69
|
4.6
|
18.8
|
1.0
|
CB
|
A:SER20
|
4.6
|
13.7
|
1.0
|
CA
|
A:LYS28
|
4.6
|
15.1
|
1.0
|
CA
|
A:LYS26
|
4.6
|
19.5
|
1.0
|
O
|
A:HOH2077
|
4.6
|
22.3
|
1.0
|
CG
|
A:GLU23
|
4.7
|
17.9
|
1.0
|
C
|
A:LYS26
|
4.7
|
17.8
|
1.0
|
C
|
A:LEU29
|
4.7
|
14.5
|
1.0
|
CA
|
A:GLY21
|
4.7
|
16.8
|
1.0
|
N
|
A:SER22
|
4.8
|
17.5
|
1.0
|
O
|
A:LYS26
|
4.9
|
17.1
|
1.0
|
CB
|
A:ASP25
|
5.0
|
18.8
|
1.0
|
|
Calcium binding site 2 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 2 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca102
b:12.8
occ:1.00
|
OD1
|
A:ASP63
|
2.3
|
15.8
|
1.0
|
OE1
|
A:GLU74
|
2.3
|
12.9
|
1.0
|
O
|
A:GLU69
|
2.3
|
15.9
|
1.0
|
OD1
|
A:ASN65
|
2.4
|
18.2
|
1.0
|
O
|
A:HOH2072
|
2.4
|
9.9
|
1.0
|
OD1
|
A:ASP67
|
2.4
|
17.7
|
1.0
|
OE2
|
A:GLU74
|
2.5
|
13.9
|
1.0
|
CD
|
A:GLU74
|
2.8
|
13.5
|
1.0
|
CG
|
A:ASP67
|
3.3
|
18.6
|
1.0
|
CG
|
A:ASP63
|
3.4
|
16.7
|
1.0
|
CG
|
A:ASN65
|
3.5
|
19.4
|
1.0
|
C
|
A:GLU69
|
3.5
|
16.0
|
1.0
|
OD2
|
A:ASP67
|
3.7
|
18.2
|
1.0
|
CA
|
A:ASP63
|
3.9
|
15.9
|
1.0
|
ND2
|
A:ASN65
|
4.0
|
19.5
|
1.0
|
CB
|
A:ASP63
|
4.1
|
16.4
|
1.0
|
N
|
A:GLU69
|
4.2
|
18.1
|
1.0
|
N
|
A:ASP67
|
4.3
|
20.9
|
1.0
|
OD2
|
A:ASP63
|
4.3
|
17.6
|
1.0
|
CG
|
A:GLU74
|
4.3
|
13.1
|
1.0
|
C
|
A:ASP63
|
4.3
|
17.4
|
1.0
|
CA
|
A:GLU69
|
4.3
|
17.0
|
1.0
|
N
|
A:ASN65
|
4.4
|
20.0
|
1.0
|
N
|
A:VAL70
|
4.4
|
14.8
|
1.0
|
N
|
A:ASP71
|
4.4
|
13.1
|
1.0
|
CA
|
A:VAL70
|
4.4
|
13.7
|
1.0
|
N
|
A:LYS66
|
4.5
|
21.7
|
1.0
|
N
|
A:SER64
|
4.5
|
17.7
|
1.0
|
CB
|
A:ASP67
|
4.6
|
20.0
|
1.0
|
OD2
|
A:ASP71
|
4.6
|
14.4
|
1.0
|
CB
|
A:GLU69
|
4.6
|
17.2
|
1.0
|
CB
|
A:ASN65
|
4.7
|
20.6
|
1.0
|
O
|
A:HOH2082
|
4.8
|
23.0
|
1.0
|
CA
|
A:ASP67
|
4.8
|
20.9
|
1.0
|
CA
|
A:ASN65
|
4.8
|
21.0
|
1.0
|
C
|
A:ASN65
|
4.9
|
21.8
|
1.0
|
CG
|
A:ASP71
|
4.9
|
13.4
|
1.0
|
O
|
A:ASP63
|
4.9
|
18.6
|
1.0
|
C
|
A:VAL70
|
5.0
|
13.1
|
1.0
|
|
Calcium binding site 3 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 3 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca101
b:8.6
occ:1.00
|
O
|
B:LYS28
|
2.3
|
11.2
|
1.0
|
OE1
|
B:GLU33
|
2.3
|
9.6
|
1.0
|
O
|
B:HOH2077
|
2.3
|
8.9
|
1.0
|
O
|
B:GLU23
|
2.4
|
11.1
|
1.0
|
O
|
B:SER20
|
2.4
|
10.4
|
1.0
|
O
|
B:ASP25
|
2.4
|
12.0
|
1.0
|
OE2
|
B:GLU33
|
2.8
|
10.2
|
1.0
|
CD
|
B:GLU33
|
2.9
|
10.0
|
1.0
|
C
|
B:SER20
|
3.4
|
10.3
|
1.0
|
C
|
B:LYS28
|
3.5
|
10.4
|
1.0
|
C
|
B:GLU23
|
3.6
|
12.4
|
1.0
|
C
|
B:ASP25
|
3.6
|
13.3
|
1.0
|
N
|
B:ASP25
|
4.0
|
13.9
|
1.0
|
CA
|
B:SER20
|
4.1
|
9.6
|
1.0
|
C
|
B:GLY24
|
4.1
|
13.6
|
1.0
|
N
|
B:GLU23
|
4.2
|
12.5
|
1.0
|
N
|
B:SER30
|
4.3
|
10.4
|
1.0
|
CG
|
B:GLU33
|
4.4
|
10.3
|
1.0
|
N
|
B:LEU29
|
4.4
|
10.0
|
1.0
|
CA
|
B:ASP25
|
4.4
|
14.1
|
1.0
|
CA
|
B:LEU29
|
4.4
|
9.7
|
1.0
|
CA
|
B:GLY24
|
4.4
|
13.8
|
1.0
|
N
|
B:GLY24
|
4.4
|
13.6
|
1.0
|
N
|
B:GLY21
|
4.5
|
10.9
|
1.0
|
N
|
B:LYS28
|
4.5
|
10.8
|
1.0
|
CA
|
B:GLU23
|
4.5
|
12.9
|
1.0
|
O
|
B:GLY24
|
4.5
|
13.6
|
1.0
|
N
|
B:LYS26
|
4.5
|
13.5
|
1.0
|
CA
|
B:LYS28
|
4.6
|
10.8
|
1.0
|
CB
|
B:SER20
|
4.6
|
9.1
|
1.0
|
CG
|
B:GLU23
|
4.6
|
12.5
|
1.0
|
CA
|
B:LYS26
|
4.7
|
13.6
|
1.0
|
OE1
|
B:GLU69
|
4.7
|
15.4
|
1.0
|
C
|
B:LEU29
|
4.7
|
10.2
|
1.0
|
N
|
B:SER22
|
4.8
|
12.3
|
1.0
|
C
|
B:LYS26
|
4.8
|
12.3
|
1.0
|
CA
|
B:GLY21
|
4.8
|
11.7
|
1.0
|
O
|
B:HOH2079
|
4.8
|
11.6
|
1.0
|
CB
|
B:ASP25
|
4.9
|
14.7
|
1.0
|
O
|
B:LYS26
|
5.0
|
12.1
|
1.0
|
|
Calcium binding site 4 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 4 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca102
b:11.7
occ:1.00
|
OD1
|
B:ASP63
|
2.3
|
14.2
|
1.0
|
OD1
|
B:ASN65
|
2.3
|
15.8
|
1.0
|
OD1
|
B:ASP67
|
2.3
|
14.3
|
1.0
|
O
|
B:GLU69
|
2.4
|
12.7
|
1.0
|
OE1
|
B:GLU74
|
2.4
|
12.4
|
1.0
|
O
|
B:HOH2073
|
2.5
|
10.2
|
1.0
|
OE2
|
B:GLU74
|
2.6
|
13.2
|
1.0
|
CD
|
B:GLU74
|
2.9
|
12.6
|
1.0
|
CG
|
B:ASP67
|
3.2
|
15.3
|
1.0
|
CG
|
B:ASP63
|
3.4
|
15.0
|
1.0
|
CG
|
B:ASN65
|
3.4
|
16.7
|
1.0
|
C
|
B:GLU69
|
3.5
|
13.0
|
1.0
|
OD2
|
B:ASP67
|
3.6
|
14.9
|
1.0
|
CA
|
B:ASP63
|
4.0
|
14.5
|
1.0
|
ND2
|
B:ASN65
|
4.0
|
16.7
|
1.0
|
CB
|
B:ASP63
|
4.0
|
14.7
|
1.0
|
N
|
B:GLU69
|
4.1
|
15.3
|
1.0
|
N
|
B:ASP67
|
4.2
|
17.9
|
1.0
|
OD2
|
B:ASP63
|
4.3
|
16.2
|
1.0
|
CA
|
B:GLU69
|
4.3
|
13.9
|
1.0
|
N
|
B:ASN65
|
4.3
|
17.3
|
1.0
|
N
|
B:VAL70
|
4.3
|
11.8
|
1.0
|
C
|
B:ASP63
|
4.4
|
15.9
|
1.0
|
CG
|
B:GLU74
|
4.4
|
12.2
|
1.0
|
CA
|
B:VAL70
|
4.4
|
11.2
|
1.0
|
CB
|
B:ASP67
|
4.4
|
17.1
|
1.0
|
OD2
|
B:ASP71
|
4.5
|
13.1
|
1.0
|
N
|
B:ASP71
|
4.5
|
10.7
|
1.0
|
CB
|
B:GLU69
|
4.5
|
14.6
|
1.0
|
N
|
B:LYS66
|
4.6
|
18.6
|
1.0
|
N
|
B:SER64
|
4.7
|
16.0
|
1.0
|
CB
|
B:ASN65
|
4.7
|
18.0
|
1.0
|
CA
|
B:ASP67
|
4.7
|
18.0
|
1.0
|
O
|
B:HOH2084
|
4.8
|
23.4
|
1.0
|
CA
|
B:ASN65
|
4.8
|
18.6
|
1.0
|
C
|
B:ASN65
|
4.8
|
19.1
|
1.0
|
CG
|
B:ASP71
|
4.9
|
11.9
|
1.0
|
N
|
B:ASN68
|
4.9
|
17.9
|
1.0
|
O
|
B:ASP63
|
4.9
|
17.2
|
1.0
|
O
|
B:LEU62
|
5.0
|
13.2
|
1.0
|
C
|
B:ASP67
|
5.0
|
17.5
|
1.0
|
C
|
B:VAL70
|
5.0
|
10.5
|
1.0
|
|
Calcium binding site 5 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 5 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca101
b:12.2
occ:1.00
|
O
|
C:LYS28
|
2.3
|
11.2
|
1.0
|
O
|
C:SER20
|
2.3
|
12.5
|
1.0
|
O
|
C:ASP25
|
2.4
|
12.8
|
1.0
|
OE1
|
C:GLU33
|
2.4
|
13.0
|
1.0
|
O
|
C:HOH2060
|
2.4
|
8.6
|
1.0
|
O
|
C:GLU23
|
2.4
|
13.2
|
1.0
|
OE2
|
C:GLU33
|
2.9
|
13.7
|
1.0
|
CD
|
C:GLU33
|
3.0
|
13.6
|
1.0
|
C
|
C:SER20
|
3.4
|
12.9
|
1.0
|
C
|
C:ASP25
|
3.5
|
13.1
|
1.0
|
C
|
C:LYS28
|
3.6
|
11.4
|
1.0
|
C
|
C:GLU23
|
3.6
|
14.1
|
1.0
|
CA
|
C:SER20
|
4.0
|
12.6
|
1.0
|
N
|
C:ASP25
|
4.0
|
13.7
|
1.0
|
C
|
C:GLY24
|
4.1
|
13.7
|
1.0
|
N
|
C:GLU23
|
4.2
|
15.0
|
1.0
|
N
|
C:SER30
|
4.3
|
12.9
|
1.0
|
N
|
C:LYS28
|
4.4
|
11.6
|
1.0
|
CA
|
C:ASP25
|
4.4
|
13.6
|
1.0
|
N
|
C:GLY21
|
4.4
|
13.8
|
1.0
|
O
|
C:GLY24
|
4.4
|
13.7
|
1.0
|
N
|
C:LEU29
|
4.4
|
11.2
|
1.0
|
CA
|
C:GLY24
|
4.4
|
14.1
|
1.0
|
N
|
C:LYS26
|
4.4
|
12.9
|
1.0
|
CA
|
C:LEU29
|
4.5
|
11.7
|
1.0
|
CG
|
C:GLU33
|
4.5
|
14.8
|
1.0
|
N
|
C:GLY24
|
4.5
|
14.3
|
1.0
|
CA
|
C:LYS28
|
4.5
|
11.6
|
1.0
|
CA
|
C:GLU23
|
4.5
|
14.9
|
1.0
|
CA
|
C:LYS26
|
4.6
|
13.0
|
1.0
|
OE1
|
C:GLU69
|
4.6
|
16.6
|
1.0
|
CB
|
C:SER20
|
4.6
|
11.6
|
1.0
|
C
|
C:LYS26
|
4.7
|
12.5
|
1.0
|
O
|
C:HOH2061
|
4.7
|
18.1
|
1.0
|
CG
|
C:GLU23
|
4.7
|
16.0
|
1.0
|
N
|
C:SER22
|
4.7
|
15.7
|
1.0
|
CA
|
C:GLY21
|
4.7
|
14.2
|
1.0
|
C
|
C:LEU29
|
4.8
|
12.5
|
1.0
|
O
|
C:LYS26
|
4.9
|
12.4
|
1.0
|
CB
|
C:ASP25
|
5.0
|
14.2
|
1.0
|
C
|
C:GLY21
|
5.0
|
15.2
|
1.0
|
|
Calcium binding site 6 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 6 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca102
b:12.9
occ:1.00
|
OD1
|
C:ASP63
|
2.2
|
18.9
|
1.0
|
O
|
C:GLU69
|
2.3
|
15.9
|
1.0
|
OD1
|
C:ASN65
|
2.3
|
21.4
|
1.0
|
OD1
|
C:ASP67
|
2.4
|
17.9
|
1.0
|
O
|
C:HOH2055
|
2.4
|
12.4
|
1.0
|
OE1
|
C:GLU74
|
2.5
|
14.2
|
1.0
|
OE2
|
C:GLU74
|
2.6
|
16.0
|
1.0
|
CD
|
C:GLU74
|
2.9
|
15.0
|
1.0
|
CG
|
C:ASP67
|
3.3
|
18.5
|
1.0
|
CG
|
C:ASP63
|
3.3
|
20.2
|
1.0
|
C
|
C:GLU69
|
3.4
|
15.5
|
1.0
|
CG
|
C:ASN65
|
3.4
|
21.9
|
1.0
|
OD2
|
C:ASP67
|
3.6
|
17.8
|
1.0
|
CA
|
C:ASP63
|
3.9
|
20.0
|
1.0
|
ND2
|
C:ASN65
|
4.0
|
21.7
|
1.0
|
CB
|
C:ASP63
|
4.0
|
20.3
|
1.0
|
N
|
C:GLU69
|
4.1
|
18.3
|
1.0
|
OD2
|
C:ASP63
|
4.2
|
21.2
|
1.0
|
CA
|
C:GLU69
|
4.2
|
16.5
|
1.0
|
N
|
C:ASP67
|
4.3
|
22.7
|
1.0
|
N
|
C:VAL70
|
4.3
|
14.0
|
1.0
|
C
|
C:ASP63
|
4.4
|
21.8
|
1.0
|
CA
|
C:VAL70
|
4.4
|
13.2
|
1.0
|
CG
|
C:GLU74
|
4.4
|
14.6
|
1.0
|
N
|
C:ASN65
|
4.4
|
23.7
|
1.0
|
CB
|
C:ASP67
|
4.5
|
19.9
|
1.0
|
OD2
|
C:ASP71
|
4.5
|
13.6
|
1.0
|
N
|
C:ASP71
|
4.5
|
12.0
|
1.0
|
CB
|
C:GLU69
|
4.5
|
15.8
|
1.0
|
N
|
C:LYS66
|
4.6
|
25.4
|
1.0
|
N
|
C:SER64
|
4.6
|
21.8
|
1.0
|
CB
|
C:ASN65
|
4.7
|
23.7
|
1.0
|
O
|
C:HOH2067
|
4.7
|
20.2
|
1.0
|
CA
|
C:ASP67
|
4.8
|
21.6
|
1.0
|
N
|
C:ASN68
|
4.9
|
22.0
|
1.0
|
CA
|
C:ASN65
|
4.9
|
24.8
|
1.0
|
CG
|
C:ASP71
|
4.9
|
12.7
|
1.0
|
O
|
C:ASP63
|
5.0
|
23.5
|
1.0
|
C
|
C:VAL70
|
5.0
|
11.9
|
1.0
|
C
|
C:ASP67
|
5.0
|
21.1
|
1.0
|
C
|
C:ASN65
|
5.0
|
25.5
|
1.0
|
|
Calcium binding site 7 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 7 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca101
b:13.4
occ:1.00
|
O
|
D:GLU23
|
2.3
|
15.7
|
1.0
|
OE1
|
D:GLU33
|
2.3
|
14.0
|
1.0
|
O
|
D:LYS28
|
2.3
|
13.7
|
1.0
|
O
|
D:HOH2058
|
2.4
|
11.3
|
1.0
|
O
|
D:SER20
|
2.4
|
15.7
|
1.0
|
O
|
D:ASP25
|
2.4
|
14.7
|
1.0
|
OE2
|
D:GLU33
|
2.8
|
15.1
|
1.0
|
CD
|
D:GLU33
|
2.9
|
15.0
|
1.0
|
C
|
D:SER20
|
3.4
|
16.4
|
1.0
|
C
|
D:LYS28
|
3.5
|
13.3
|
1.0
|
C
|
D:GLU23
|
3.5
|
16.9
|
1.0
|
C
|
D:ASP25
|
3.6
|
15.3
|
1.0
|
CA
|
D:SER20
|
4.0
|
15.9
|
1.0
|
N
|
D:ASP25
|
4.1
|
15.5
|
1.0
|
C
|
D:GLY24
|
4.1
|
15.7
|
1.0
|
N
|
D:GLU23
|
4.2
|
18.5
|
1.0
|
N
|
D:SER30
|
4.3
|
14.6
|
1.0
|
O
|
D:GLY24
|
4.4
|
15.7
|
1.0
|
N
|
D:LYS28
|
4.4
|
13.4
|
1.0
|
N
|
D:GLY21
|
4.4
|
17.3
|
1.0
|
CA
|
D:LYS26
|
4.4
|
15.9
|
1.0
|
N
|
D:LEU29
|
4.4
|
12.9
|
1.0
|
N
|
D:LYS26
|
4.4
|
15.7
|
1.0
|
CA
|
D:ASP25
|
4.4
|
15.3
|
1.0
|
CG
|
D:GLU33
|
4.4
|
16.4
|
1.0
|
N
|
D:GLY24
|
4.5
|
16.8
|
1.0
|
CA
|
D:GLU23
|
4.5
|
18.2
|
1.0
|
CA
|
D:GLY24
|
4.5
|
16.3
|
1.0
|
CA
|
D:LEU29
|
4.5
|
13.5
|
1.0
|
CA
|
D:LYS28
|
4.5
|
13.2
|
1.0
|
CB
|
D:SER20
|
4.5
|
14.8
|
1.0
|
OE1
|
D:GLU69
|
4.6
|
20.3
|
1.0
|
O
|
D:HOH2057
|
4.6
|
18.8
|
1.0
|
CG
|
D:GLU23
|
4.7
|
19.1
|
1.0
|
C
|
D:LYS26
|
4.7
|
15.1
|
1.0
|
CA
|
D:GLY21
|
4.7
|
18.0
|
1.0
|
N
|
D:SER22
|
4.7
|
19.5
|
1.0
|
C
|
D:LEU29
|
4.9
|
14.1
|
1.0
|
CB
|
D:LYS28
|
4.9
|
13.9
|
1.0
|
O
|
D:LYS26
|
5.0
|
14.9
|
1.0
|
CB
|
D:SER30
|
5.0
|
16.9
|
0.5
|
CB
|
D:SER30
|
5.0
|
16.6
|
0.5
|
|
Calcium binding site 8 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 8 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca102
b:14.4
occ:1.00
|
OD1
|
D:ASP63
|
2.3
|
20.4
|
1.0
|
O
|
D:HOH2053
|
2.3
|
13.9
|
1.0
|
OD1
|
D:ASN65
|
2.4
|
22.5
|
1.0
|
OD1
|
D:ASP67
|
2.4
|
19.3
|
1.0
|
O
|
D:GLU69
|
2.4
|
17.4
|
1.0
|
OE1
|
D:GLU74
|
2.5
|
15.9
|
1.0
|
OE2
|
D:GLU74
|
2.6
|
17.6
|
1.0
|
CD
|
D:GLU74
|
2.9
|
16.8
|
1.0
|
CG
|
D:ASP67
|
3.2
|
19.3
|
1.0
|
CG
|
D:ASP63
|
3.4
|
21.7
|
1.0
|
CG
|
D:ASN65
|
3.5
|
22.7
|
1.0
|
C
|
D:GLU69
|
3.5
|
17.5
|
1.0
|
OD2
|
D:ASP67
|
3.6
|
18.8
|
1.0
|
CA
|
D:ASP63
|
4.0
|
21.6
|
1.0
|
ND2
|
D:ASN65
|
4.0
|
22.7
|
1.0
|
CB
|
D:ASP63
|
4.1
|
22.0
|
1.0
|
N
|
D:GLU69
|
4.2
|
19.9
|
1.0
|
OD2
|
D:ASP63
|
4.2
|
22.4
|
1.0
|
N
|
D:ASP67
|
4.3
|
22.8
|
1.0
|
CA
|
D:GLU69
|
4.3
|
18.6
|
1.0
|
N
|
D:VAL70
|
4.3
|
16.2
|
1.0
|
CG
|
D:GLU74
|
4.4
|
16.5
|
1.0
|
CA
|
D:VAL70
|
4.4
|
15.4
|
1.0
|
CB
|
D:ASP67
|
4.4
|
20.5
|
1.0
|
C
|
D:ASP63
|
4.4
|
23.0
|
1.0
|
N
|
D:ASP71
|
4.4
|
14.4
|
1.0
|
N
|
D:ASN65
|
4.5
|
23.9
|
1.0
|
CB
|
D:GLU69
|
4.5
|
18.3
|
1.0
|
OD2
|
D:ASP71
|
4.5
|
15.9
|
1.0
|
N
|
D:LYS66
|
4.6
|
25.1
|
1.0
|
CB
|
D:ASN65
|
4.6
|
23.9
|
1.0
|
N
|
D:SER64
|
4.7
|
22.5
|
0.5
|
N
|
D:SER64
|
4.7
|
22.6
|
0.5
|
CA
|
D:ASP67
|
4.7
|
21.9
|
1.0
|
O
|
D:HOH2062
|
4.8
|
26.0
|
1.0
|
CA
|
D:ASN65
|
4.8
|
24.9
|
1.0
|
N
|
D:ASN68
|
4.9
|
22.4
|
1.0
|
C
|
D:ASN65
|
4.9
|
25.4
|
1.0
|
CG
|
D:ASP71
|
4.9
|
15.0
|
1.0
|
C
|
D:VAL70
|
4.9
|
14.2
|
1.0
|
C
|
D:ASP67
|
5.0
|
21.5
|
1.0
|
O
|
D:ASP63
|
5.0
|
24.5
|
1.0
|
|
Calcium binding site 9 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 9 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca101
b:9.5
occ:1.00
|
O
|
E:SER20
|
2.3
|
10.5
|
1.0
|
O
|
E:HOH2071
|
2.3
|
7.2
|
1.0
|
OE1
|
E:GLU33
|
2.4
|
10.6
|
1.0
|
O
|
E:LYS28
|
2.4
|
9.9
|
1.0
|
O
|
E:ASP25
|
2.4
|
11.8
|
1.0
|
O
|
E:GLU23
|
2.5
|
11.2
|
1.0
|
OE2
|
E:GLU33
|
2.8
|
10.8
|
1.0
|
CD
|
E:GLU33
|
3.0
|
10.6
|
1.0
|
C
|
E:SER20
|
3.4
|
10.8
|
1.0
|
C
|
E:LYS28
|
3.6
|
9.7
|
1.0
|
C
|
E:ASP25
|
3.6
|
13.0
|
1.0
|
C
|
E:GLU23
|
3.7
|
12.2
|
1.0
|
CA
|
E:SER20
|
4.0
|
10.2
|
1.0
|
N
|
E:ASP25
|
4.1
|
13.1
|
1.0
|
C
|
E:GLY24
|
4.1
|
13.0
|
1.0
|
N
|
E:GLU23
|
4.2
|
12.1
|
1.0
|
N
|
E:SER30
|
4.3
|
10.0
|
1.0
|
N
|
E:LYS28
|
4.4
|
10.6
|
1.0
|
CA
|
E:LYS26
|
4.4
|
13.7
|
1.0
|
N
|
E:GLY21
|
4.4
|
11.1
|
1.0
|
N
|
E:LEU29
|
4.4
|
9.3
|
1.0
|
CA
|
E:LEU29
|
4.4
|
9.2
|
1.0
|
O
|
E:GLY24
|
4.5
|
12.8
|
1.0
|
CG
|
E:GLU33
|
4.5
|
10.8
|
1.0
|
CA
|
E:ASP25
|
4.5
|
13.4
|
1.0
|
CA
|
E:GLY24
|
4.5
|
13.2
|
1.0
|
N
|
E:LYS26
|
4.5
|
13.7
|
1.0
|
CA
|
E:LYS28
|
4.5
|
10.2
|
1.0
|
N
|
E:GLY24
|
4.5
|
12.9
|
1.0
|
CB
|
E:SER20
|
4.5
|
9.8
|
1.0
|
CA
|
E:GLU23
|
4.6
|
12.5
|
1.0
|
OE1
|
E:GLU69
|
4.6
|
16.8
|
1.0
|
C
|
E:LYS26
|
4.7
|
12.6
|
1.0
|
CA
|
E:GLY21
|
4.7
|
11.7
|
1.0
|
CG
|
E:GLU23
|
4.7
|
12.2
|
1.0
|
C
|
E:LEU29
|
4.8
|
9.8
|
1.0
|
O
|
E:HOH2029
|
4.8
|
16.5
|
1.0
|
N
|
E:SER22
|
4.8
|
12.2
|
1.0
|
OG
|
E:SER30
|
4.9
|
12.1
|
0.5
|
O
|
E:LYS26
|
4.9
|
12.8
|
1.0
|
CB
|
E:ASP25
|
5.0
|
13.6
|
1.0
|
|
Calcium binding site 10 out
of 12 in 2y5i
Go back to
Calcium Binding Sites List in 2y5i
Calcium binding site 10 out
of 12 in the S100Z From Zebrafish in Complex with Calcium
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of S100Z From Zebrafish in Complex with Calcium within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca102
b:11.3
occ:1.00
|
OD1
|
E:ASP67
|
2.3
|
14.8
|
1.0
|
OD1
|
E:ASN65
|
2.3
|
16.1
|
1.0
|
O
|
E:GLU69
|
2.3
|
13.4
|
1.0
|
OD1
|
E:ASP63
|
2.4
|
13.8
|
1.0
|
O
|
E:HOH2065
|
2.4
|
9.3
|
1.0
|
OE1
|
E:GLU74
|
2.4
|
12.1
|
1.0
|
OE2
|
E:GLU74
|
2.6
|
13.1
|
1.0
|
CD
|
E:GLU74
|
2.9
|
12.5
|
1.0
|
CG
|
E:ASP67
|
3.2
|
15.9
|
1.0
|
CG
|
E:ASP63
|
3.4
|
14.2
|
1.0
|
CG
|
E:ASN65
|
3.4
|
16.7
|
1.0
|
C
|
E:GLU69
|
3.5
|
13.1
|
1.0
|
OD2
|
E:ASP67
|
3.6
|
15.8
|
1.0
|
CA
|
E:ASP63
|
4.0
|
13.5
|
1.0
|
ND2
|
E:ASN65
|
4.0
|
16.9
|
1.0
|
CB
|
E:ASP63
|
4.1
|
13.8
|
1.0
|
N
|
E:GLU69
|
4.2
|
15.5
|
1.0
|
N
|
E:ASP67
|
4.2
|
18.3
|
1.0
|
OD2
|
E:ASP63
|
4.3
|
15.0
|
1.0
|
CA
|
E:GLU69
|
4.3
|
14.3
|
1.0
|
N
|
E:VAL70
|
4.3
|
11.5
|
1.0
|
C
|
E:ASP63
|
4.4
|
14.7
|
1.0
|
CG
|
E:GLU74
|
4.4
|
12.3
|
1.0
|
CA
|
E:VAL70
|
4.4
|
10.5
|
1.0
|
N
|
E:ASN65
|
4.4
|
16.6
|
1.0
|
CB
|
E:ASP67
|
4.4
|
17.3
|
1.0
|
N
|
E:ASP71
|
4.5
|
10.1
|
1.0
|
CB
|
E:GLU69
|
4.5
|
14.9
|
1.0
|
OD2
|
E:ASP71
|
4.6
|
12.0
|
1.0
|
N
|
E:SER64
|
4.6
|
14.6
|
0.5
|
N
|
E:LYS66
|
4.6
|
18.3
|
1.0
|
N
|
E:SER64
|
4.6
|
14.7
|
0.5
|
CB
|
E:ASN65
|
4.7
|
17.6
|
1.0
|
CA
|
E:ASP67
|
4.7
|
18.1
|
1.0
|
O
|
E:HOH2075
|
4.8
|
23.2
|
1.0
|
CA
|
E:ASN65
|
4.9
|
17.8
|
1.0
|
C
|
E:ASN65
|
4.9
|
18.5
|
1.0
|
O
|
E:ASP63
|
4.9
|
15.7
|
1.0
|
C
|
E:VAL70
|
4.9
|
10.0
|
1.0
|
CG
|
E:ASP71
|
5.0
|
11.0
|
1.0
|
|
Reference:
O.V.Moroz,
I.B.Bronstein,
K.S.Wilson.
The Crystal Structure of Zebrafish S100Z: Implications For Calcium-Promoted S100 Protein Oligomerisation. J.Mol.Biol. V. 411 1072 2011.
ISSN: ISSN 0022-2836
PubMed: 21756915
DOI: 10.1016/J.JMB.2011.06.048
Page generated: Fri Jul 12 19:20:33 2024
|