Calcium in PDB 3p4g: X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
Protein crystallography data
The structure of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium, PDB code: 3p4g
was solved by
C.P.Garnham,
R.L.Campbell,
P.L.Davies,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
34.60 /
1.70
|
|
Space group
|
P 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
57.500,
70.780,
84.250,
99.06,
92.30,
97.47
|
|
R / Rfree (%)
|
16.4 /
20
|
Other elements in 3p4g:
The structure of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium also contains other interesting chemical elements:
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
30;
Page 4, Binding sites: 31 -
40;
Page 5, Binding sites: 41 -
50;
Page 6, Binding sites: 51 -
52;
Binding sites:
The binding sites of Calcium atom in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
(pdb code 3p4g). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 52 binding sites of Calcium where determined in the
X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium, PDB code: 3p4g:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 1 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca401
b:3.2
occ:1.00
|
O
|
A:ALA54
|
2.2
|
10.7
|
1.0
|
|
O
|
A:VAL52
|
2.3
|
11.7
|
1.0
|
|
O
|
A:ASP34
|
2.3
|
15.4
|
1.0
|
|
OD1
|
A:ASP57
|
2.3
|
12.4
|
1.0
|
|
O
|
A:SER36
|
2.4
|
13.7
|
1.0
|
|
OD1
|
A:ASN38
|
2.4
|
12.8
|
1.0
|
|
CG
|
A:ASP57
|
3.1
|
10.1
|
1.0
|
|
OD2
|
A:ASP57
|
3.2
|
8.9
|
1.0
|
|
CG
|
A:ASN38
|
3.5
|
14.0
|
1.0
|
|
C
|
A:ALA54
|
3.5
|
10.7
|
1.0
|
|
C
|
A:ASP34
|
3.5
|
15.6
|
1.0
|
|
C
|
A:VAL52
|
3.5
|
10.6
|
1.0
|
|
C
|
A:SER36
|
3.6
|
14.8
|
1.0
|
|
C
|
A:ALA35
|
3.9
|
15.2
|
1.0
|
|
N
|
A:SER36
|
4.0
|
15.5
|
1.0
|
|
N
|
A:ASN38
|
4.0
|
12.2
|
1.0
|
|
C
|
A:LEU53
|
4.0
|
9.3
|
1.0
|
|
O
|
A:LEU53
|
4.1
|
8.9
|
1.0
|
|
CB
|
A:ASN38
|
4.1
|
12.3
|
1.0
|
|
CA
|
A:ALA35
|
4.2
|
16.0
|
1.0
|
|
N
|
A:ALA54
|
4.2
|
10.6
|
1.0
|
|
N
|
A:ALA35
|
4.3
|
16.5
|
1.0
|
|
O
|
A:ALA35
|
4.3
|
15.6
|
1.0
|
|
CA
|
A:GLY55
|
4.3
|
11.1
|
1.0
|
|
N
|
A:GLY55
|
4.4
|
11.7
|
1.0
|
|
CA
|
A:VAL52
|
4.4
|
10.0
|
1.0
|
|
CA
|
A:SER36
|
4.4
|
15.4
|
0.5
|
|
CA
|
A:SER36
|
4.4
|
14.8
|
0.5
|
|
N
|
A:ASP34
|
4.4
|
14.1
|
1.0
|
|
CA
|
A:ALA54
|
4.4
|
10.8
|
1.0
|
|
CB
|
A:VAL52
|
4.4
|
8.9
|
1.0
|
|
N
|
A:LEU53
|
4.4
|
9.5
|
1.0
|
|
OD2
|
A:ASP34
|
4.5
|
19.2
|
1.0
|
|
ND2
|
A:ASN38
|
4.5
|
18.1
|
1.0
|
|
CB
|
A:ASP57
|
4.5
|
9.0
|
1.0
|
|
CA
|
A:ASP34
|
4.6
|
15.8
|
1.0
|
|
CA
|
A:LEU53
|
4.6
|
9.8
|
1.0
|
|
N
|
A:ASN37
|
4.6
|
13.4
|
1.0
|
|
CB
|
A:LEU53
|
4.6
|
10.5
|
1.0
|
|
CA
|
A:ASN37
|
4.7
|
13.7
|
1.0
|
|
CA
|
A:ASN38
|
4.7
|
12.5
|
1.0
|
|
C
|
A:GLY55
|
4.7
|
11.3
|
1.0
|
|
O
|
A:GLY55
|
4.8
|
11.2
|
1.0
|
|
C
|
A:ASN37
|
4.8
|
13.9
|
1.0
|
|
CA
|
A:CA402
|
4.9
|
3.4
|
1.0
|
|
OG
|
A:SER36
|
4.9
|
12.7
|
0.5
|
|
Calcium binding site 2 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 2 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca402
b:3.4
occ:1.00
|
O
|
A:THR81
|
2.3
|
8.8
|
1.0
|
|
OD1
|
A:ASP84
|
2.3
|
9.2
|
1.0
|
|
OD2
|
A:ASP57
|
2.3
|
8.9
|
1.0
|
|
O
|
A:MET79
|
2.3
|
8.5
|
1.0
|
|
O
|
A:LEU53
|
2.4
|
8.9
|
1.0
|
|
O
|
A:GLY55
|
2.4
|
11.2
|
1.0
|
|
OD2
|
A:ASP84
|
3.0
|
8.3
|
1.0
|
|
CG
|
A:ASP84
|
3.0
|
10.0
|
1.0
|
|
CG
|
A:ASP57
|
3.4
|
10.1
|
1.0
|
|
C
|
A:THR81
|
3.5
|
9.3
|
1.0
|
|
C
|
A:MET79
|
3.5
|
8.5
|
1.0
|
|
C
|
A:LEU53
|
3.6
|
9.3
|
1.0
|
|
C
|
A:GLY55
|
3.6
|
11.3
|
1.0
|
|
C
|
A:ALA54
|
3.8
|
10.7
|
1.0
|
|
C
|
A:GLY80
|
3.8
|
8.7
|
1.0
|
|
N
|
A:GLY55
|
4.0
|
11.7
|
1.0
|
|
O
|
A:ALA54
|
4.0
|
10.7
|
1.0
|
|
O
|
A:GLY80
|
4.0
|
8.1
|
1.0
|
|
CA
|
A:GLY80
|
4.1
|
9.1
|
1.0
|
|
N
|
A:THR81
|
4.1
|
8.9
|
1.0
|
|
CA
|
A:ALA54
|
4.2
|
10.8
|
1.0
|
|
CB
|
A:ASP57
|
4.2
|
9.0
|
1.0
|
|
CA
|
A:GLY82
|
4.2
|
9.7
|
1.0
|
|
N
|
A:GLY80
|
4.2
|
7.7
|
1.0
|
|
N
|
A:ASP57
|
4.3
|
10.3
|
1.0
|
|
N
|
A:GLY82
|
4.3
|
9.4
|
1.0
|
|
OD1
|
A:ASP57
|
4.3
|
12.4
|
1.0
|
|
N
|
A:ALA54
|
4.4
|
10.6
|
1.0
|
|
CA
|
A:GLY55
|
4.4
|
11.1
|
1.0
|
|
O
|
A:VAL52
|
4.4
|
11.7
|
1.0
|
|
CB
|
A:ASP84
|
4.5
|
10.4
|
1.0
|
|
CA
|
A:THR81
|
4.5
|
8.4
|
1.0
|
|
N
|
A:LEU53
|
4.6
|
9.5
|
1.0
|
|
C
|
A:VAL52
|
4.6
|
10.6
|
1.0
|
|
N
|
A:ASP56
|
4.6
|
10.6
|
1.0
|
|
CG2
|
A:VAL52
|
4.7
|
8.9
|
1.0
|
|
CA
|
A:LEU53
|
4.7
|
9.8
|
1.0
|
|
CA
|
A:MET79
|
4.7
|
9.4
|
1.0
|
|
C
|
A:GLY82
|
4.7
|
8.9
|
1.0
|
|
CA
|
A:ASP56
|
4.8
|
11.1
|
1.0
|
|
CA
|
A:CA403
|
4.8
|
3.4
|
1.0
|
|
CA
|
A:CA401
|
4.9
|
3.2
|
1.0
|
|
CA
|
A:ASP57
|
4.9
|
10.3
|
1.0
|
|
O
|
A:GLY82
|
4.9
|
7.3
|
1.0
|
|
Calcium binding site 3 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 3 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca403
b:3.4
occ:1.00
|
O
|
A:THR100
|
2.3
|
8.6
|
1.0
|
|
OD2
|
A:ASP84
|
2.3
|
8.3
|
1.0
|
|
O
|
A:ALA98
|
2.4
|
9.0
|
1.0
|
|
OD1
|
A:ASP103
|
2.4
|
7.6
|
1.0
|
|
O
|
A:GLY82
|
2.4
|
7.3
|
1.0
|
|
O
|
A:GLY80
|
2.4
|
8.1
|
1.0
|
|
OD2
|
A:ASP103
|
2.9
|
8.2
|
1.0
|
|
CG
|
A:ASP103
|
3.0
|
6.3
|
1.0
|
|
C
|
A:GLY82
|
3.5
|
8.9
|
1.0
|
|
CG
|
A:ASP84
|
3.5
|
10.0
|
1.0
|
|
C
|
A:THR100
|
3.5
|
9.2
|
1.0
|
|
C
|
A:ALA98
|
3.6
|
8.9
|
1.0
|
|
C
|
A:GLY80
|
3.6
|
8.7
|
1.0
|
|
N
|
A:GLY82
|
3.8
|
9.4
|
1.0
|
|
C
|
A:THR81
|
3.8
|
9.3
|
1.0
|
|
C
|
A:GLY99
|
3.9
|
9.3
|
1.0
|
|
O
|
A:GLY99
|
4.0
|
7.9
|
1.0
|
|
O
|
A:THR81
|
4.1
|
8.8
|
1.0
|
|
CB
|
A:ASP84
|
4.1
|
10.4
|
1.0
|
|
CA
|
A:GLY82
|
4.1
|
9.7
|
1.0
|
|
CA
|
A:GLY99
|
4.2
|
9.1
|
1.0
|
|
N
|
A:THR100
|
4.2
|
9.4
|
1.0
|
|
N
|
A:ASP84
|
4.2
|
7.6
|
1.0
|
|
CA
|
A:THR81
|
4.3
|
8.4
|
1.0
|
|
N
|
A:GLY99
|
4.3
|
8.8
|
1.0
|
|
CA
|
A:GLY101
|
4.3
|
10.0
|
1.0
|
|
N
|
A:GLY101
|
4.4
|
8.9
|
1.0
|
|
N
|
A:THR81
|
4.4
|
8.9
|
1.0
|
|
CB
|
A:ASP103
|
4.5
|
7.9
|
1.0
|
|
OD1
|
A:ASP84
|
4.5
|
9.2
|
1.0
|
|
O
|
A:MET79
|
4.5
|
8.5
|
1.0
|
|
C
|
A:MET79
|
4.5
|
8.5
|
1.0
|
|
CA
|
A:THR100
|
4.5
|
9.6
|
1.0
|
|
N
|
A:ASN83
|
4.5
|
8.3
|
1.0
|
|
CB
|
A:MET79
|
4.6
|
8.9
|
1.0
|
|
N
|
A:GLY80
|
4.6
|
7.7
|
1.0
|
|
CA
|
A:ALA98
|
4.7
|
9.1
|
1.0
|
|
CA
|
A:GLY80
|
4.7
|
9.1
|
1.0
|
|
C
|
A:GLY101
|
4.7
|
8.5
|
1.0
|
|
O
|
A:GLY101
|
4.8
|
7.8
|
1.0
|
|
CA
|
A:CA404
|
4.8
|
3.9
|
1.0
|
|
CA
|
A:ASN83
|
4.8
|
8.5
|
1.0
|
|
CA
|
A:CA402
|
4.8
|
3.4
|
1.0
|
|
CA
|
A:ASP84
|
4.8
|
8.3
|
1.0
|
|
CB
|
A:ALA98
|
5.0
|
7.7
|
1.0
|
|
C
|
A:ASN83
|
5.0
|
8.4
|
1.0
|
|
Calcium binding site 4 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 4 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca404
b:3.9
occ:1.00
|
O
|
A:THR119
|
2.2
|
8.2
|
1.0
|
|
OD1
|
A:ASP122
|
2.3
|
8.5
|
1.0
|
|
OD2
|
A:ASP103
|
2.4
|
8.2
|
1.0
|
|
O
|
A:ALA117
|
2.4
|
7.8
|
1.0
|
|
O
|
A:GLY101
|
2.4
|
7.8
|
1.0
|
|
O
|
A:GLY99
|
2.4
|
7.9
|
1.0
|
|
OD2
|
A:ASP122
|
3.1
|
7.7
|
1.0
|
|
CG
|
A:ASP122
|
3.1
|
7.5
|
1.0
|
|
CG
|
A:ASP103
|
3.5
|
6.3
|
1.0
|
|
C
|
A:THR119
|
3.5
|
7.2
|
1.0
|
|
C
|
A:GLY101
|
3.5
|
8.5
|
1.0
|
|
C
|
A:ALA117
|
3.6
|
7.5
|
1.0
|
|
C
|
A:GLY99
|
3.6
|
9.3
|
1.0
|
|
C
|
A:THR100
|
3.8
|
9.2
|
1.0
|
|
C
|
A:GLY118
|
3.8
|
8.0
|
1.0
|
|
N
|
A:GLY101
|
3.9
|
8.9
|
1.0
|
|
O
|
A:THR100
|
4.0
|
8.6
|
1.0
|
|
O
|
A:GLY118
|
4.0
|
8.0
|
1.0
|
|
CB
|
A:ASP103
|
4.0
|
7.9
|
1.0
|
|
CA
|
A:GLY118
|
4.1
|
7.8
|
1.0
|
|
N
|
A:THR119
|
4.1
|
7.1
|
1.0
|
|
CA
|
A:THR100
|
4.2
|
9.6
|
1.0
|
|
N
|
A:ASP103
|
4.2
|
6.9
|
1.0
|
|
N
|
A:GLY118
|
4.2
|
6.9
|
1.0
|
|
CA
|
A:GLY101
|
4.3
|
10.0
|
1.0
|
|
CA
|
A:GLY120
|
4.3
|
8.0
|
1.0
|
|
N
|
A:GLY120
|
4.3
|
8.3
|
1.0
|
|
N
|
A:THR100
|
4.4
|
9.4
|
1.0
|
|
O
|
A:ALA98
|
4.5
|
9.0
|
1.0
|
|
OD1
|
A:ASP103
|
4.5
|
7.6
|
1.0
|
|
CA
|
A:THR119
|
4.5
|
7.5
|
1.0
|
|
CB
|
A:ASP122
|
4.5
|
7.9
|
1.0
|
|
N
|
A:ASN102
|
4.6
|
8.9
|
1.0
|
|
C
|
A:ALA98
|
4.6
|
8.9
|
1.0
|
|
CB
|
A:ALA98
|
4.6
|
7.7
|
1.0
|
|
C
|
A:GLY120
|
4.6
|
8.1
|
1.0
|
|
O
|
A:GLY120
|
4.7
|
7.4
|
1.0
|
|
CA
|
A:ALA117
|
4.7
|
6.5
|
1.0
|
|
N
|
A:GLY99
|
4.7
|
8.8
|
1.0
|
|
CA
|
A:GLY99
|
4.7
|
9.1
|
1.0
|
|
CA
|
A:CA403
|
4.8
|
3.4
|
1.0
|
|
CA
|
A:ASP103
|
4.8
|
6.5
|
1.0
|
|
CA
|
A:ASN102
|
4.8
|
9.3
|
1.0
|
|
CA
|
A:CA405
|
4.8
|
4.2
|
1.0
|
|
Calcium binding site 5 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 5 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca405
b:4.2
occ:1.00
|
OD1
|
A:ASP141
|
2.3
|
6.1
|
1.0
|
|
O
|
A:GLY120
|
2.3
|
7.4
|
1.0
|
|
OD2
|
A:ASP122
|
2.4
|
7.7
|
1.0
|
|
O
|
A:ALA136
|
2.4
|
7.7
|
1.0
|
|
O
|
A:GLY118
|
2.4
|
8.0
|
1.0
|
|
O
|
A:THR138
|
2.4
|
6.9
|
1.0
|
|
OD2
|
A:ASP141
|
2.9
|
7.4
|
1.0
|
|
CG
|
A:ASP141
|
3.0
|
5.7
|
1.0
|
|
CG
|
A:ASP122
|
3.5
|
7.5
|
1.0
|
|
C
|
A:GLY120
|
3.6
|
8.1
|
1.0
|
|
C
|
A:ALA136
|
3.6
|
6.7
|
1.0
|
|
C
|
A:GLY118
|
3.6
|
8.0
|
1.0
|
|
C
|
A:THR138
|
3.6
|
7.3
|
1.0
|
|
C
|
A:GLY137
|
3.8
|
8.8
|
1.0
|
|
C
|
A:THR119
|
3.8
|
7.2
|
1.0
|
|
O
|
A:THR119
|
3.9
|
8.2
|
1.0
|
|
O
|
A:GLY137
|
3.9
|
7.2
|
1.0
|
|
N
|
A:GLY120
|
4.0
|
8.3
|
1.0
|
|
N
|
A:THR138
|
4.0
|
8.7
|
1.0
|
|
CB
|
A:ASP122
|
4.1
|
7.9
|
1.0
|
|
CA
|
A:GLY137
|
4.1
|
8.0
|
1.0
|
|
N
|
A:ASP122
|
4.2
|
6.3
|
1.0
|
|
CA
|
A:THR119
|
4.2
|
7.5
|
1.0
|
|
N
|
A:GLY137
|
4.3
|
7.6
|
1.0
|
|
CA
|
A:GLY120
|
4.3
|
8.0
|
1.0
|
|
N
|
A:THR119
|
4.4
|
7.1
|
1.0
|
|
OD1
|
A:ASP122
|
4.4
|
8.5
|
1.0
|
|
CB
|
A:ASP141
|
4.5
|
6.5
|
1.0
|
|
CA
|
A:THR138
|
4.5
|
7.7
|
1.0
|
|
CB
|
A:ASP139
|
4.5
|
6.2
|
0.5
|
|
N
|
A:ASN121
|
4.6
|
7.5
|
1.0
|
|
O
|
A:ASP139
|
4.6
|
5.6
|
1.0
|
|
O
|
A:ALA117
|
4.6
|
7.8
|
1.0
|
|
CB
|
A:ASP139
|
4.6
|
7.2
|
0.5
|
|
N
|
A:GLY118
|
4.6
|
6.9
|
1.0
|
|
C
|
A:ALA117
|
4.6
|
7.5
|
1.0
|
|
N
|
A:ASP139
|
4.6
|
6.2
|
1.0
|
|
CA
|
A:CA406
|
4.7
|
4.3
|
1.0
|
|
CA
|
A:ALA136
|
4.7
|
7.0
|
1.0
|
|
CA
|
A:GLY118
|
4.7
|
7.8
|
1.0
|
|
C
|
A:ASP139
|
4.7
|
6.2
|
1.0
|
|
CB
|
A:ALA117
|
4.7
|
6.3
|
1.0
|
|
CA
|
A:ASN121
|
4.8
|
6.4
|
1.0
|
|
CA
|
A:ASP122
|
4.8
|
7.0
|
1.0
|
|
CA
|
A:ASP139
|
4.8
|
6.9
|
0.5
|
|
CA
|
A:CA404
|
4.8
|
3.9
|
1.0
|
|
CA
|
A:ASP139
|
4.8
|
7.4
|
0.5
|
|
CB
|
A:ALA136
|
5.0
|
7.3
|
1.0
|
|
C
|
A:ASN121
|
5.0
|
7.2
|
1.0
|
|
Calcium binding site 6 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 6 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca406
b:4.3
occ:1.00
|
O
|
A:THR157
|
2.2
|
7.5
|
1.0
|
|
O
|
A:ALA155
|
2.3
|
7.7
|
1.0
|
|
OD1
|
A:ASP160
|
2.3
|
7.3
|
1.0
|
|
OD2
|
A:ASP141
|
2.3
|
7.4
|
1.0
|
|
O
|
A:ASP139
|
2.4
|
5.6
|
1.0
|
|
O
|
A:GLY137
|
2.4
|
7.2
|
1.0
|
|
CG
|
A:ASP160
|
3.0
|
9.6
|
1.0
|
|
OD2
|
A:ASP160
|
3.0
|
7.6
|
1.0
|
|
CG
|
A:ASP141
|
3.4
|
5.7
|
1.0
|
|
C
|
A:THR157
|
3.5
|
7.8
|
1.0
|
|
C
|
A:ALA155
|
3.5
|
7.7
|
1.0
|
|
C
|
A:ASP139
|
3.6
|
6.2
|
1.0
|
|
C
|
A:GLY137
|
3.6
|
8.8
|
1.0
|
|
O
|
A:THR138
|
3.7
|
6.9
|
1.0
|
|
C
|
A:THR138
|
3.8
|
7.3
|
1.0
|
|
C
|
A:GLY156
|
3.9
|
7.3
|
1.0
|
|
O
|
A:GLY156
|
4.1
|
7.0
|
1.0
|
|
CA
|
A:GLY156
|
4.1
|
8.0
|
1.0
|
|
CB
|
A:ASP141
|
4.1
|
6.5
|
1.0
|
|
N
|
A:ASP139
|
4.1
|
6.2
|
1.0
|
|
N
|
A:ASP141
|
4.2
|
6.3
|
1.0
|
|
N
|
A:GLY156
|
4.2
|
8.0
|
1.0
|
|
N
|
A:THR157
|
4.2
|
7.8
|
1.0
|
|
CA
|
A:THR138
|
4.3
|
7.7
|
1.0
|
|
CA
|
A:GLY158
|
4.3
|
7.7
|
1.0
|
|
N
|
A:GLY158
|
4.3
|
9.0
|
1.0
|
|
OD1
|
A:ASP141
|
4.4
|
6.1
|
1.0
|
|
O
|
A:ALA136
|
4.4
|
7.7
|
1.0
|
|
N
|
A:THR138
|
4.4
|
8.7
|
1.0
|
|
CA
|
A:ASP139
|
4.4
|
7.4
|
0.5
|
|
CA
|
A:ASP139
|
4.5
|
6.9
|
0.5
|
|
C
|
A:ALA136
|
4.5
|
6.7
|
1.0
|
|
N
|
A:ASN140
|
4.5
|
6.9
|
1.0
|
|
CA
|
A:THR157
|
4.5
|
7.7
|
1.0
|
|
CB
|
A:ASP160
|
4.5
|
6.2
|
1.0
|
|
CB
|
A:ALA136
|
4.5
|
7.3
|
1.0
|
|
N
|
A:GLY137
|
4.6
|
7.6
|
1.0
|
|
CA
|
A:CA405
|
4.7
|
4.2
|
1.0
|
|
CA
|
A:ASN140
|
4.7
|
7.2
|
1.0
|
|
CA
|
A:ALA155
|
4.7
|
6.8
|
1.0
|
|
CA
|
A:GLY137
|
4.7
|
8.0
|
1.0
|
|
O
|
A:GLY158
|
4.7
|
8.1
|
1.0
|
|
C
|
A:GLY158
|
4.7
|
7.2
|
1.0
|
|
CA
|
A:ASP141
|
4.8
|
5.3
|
1.0
|
|
CA
|
A:CA407
|
4.9
|
4.3
|
1.0
|
|
C
|
A:ASN140
|
4.9
|
7.3
|
1.0
|
|
Calcium binding site 7 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 7 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca407
b:4.3
occ:1.00
|
OD1
|
A:ASP179
|
2.3
|
7.7
|
1.0
|
|
O
|
A:MET174
|
2.3
|
8.1
|
1.0
|
|
OD2
|
A:ASP160
|
2.4
|
7.6
|
1.0
|
|
O
|
A:GLY156
|
2.4
|
7.0
|
1.0
|
|
O
|
A:GLY158
|
2.4
|
8.1
|
1.0
|
|
O
|
A:THR176
|
2.4
|
7.7
|
1.0
|
|
OD2
|
A:ASP179
|
3.0
|
6.2
|
1.0
|
|
CG
|
A:ASP179
|
3.0
|
7.5
|
1.0
|
|
CG
|
A:ASP160
|
3.5
|
9.6
|
1.0
|
|
C
|
A:GLY158
|
3.5
|
7.2
|
1.0
|
|
C
|
A:MET174
|
3.6
|
6.8
|
1.0
|
|
C
|
A:GLY156
|
3.6
|
7.3
|
1.0
|
|
C
|
A:THR176
|
3.6
|
7.0
|
1.0
|
|
C
|
A:GLY175
|
3.8
|
8.2
|
1.0
|
|
C
|
A:THR157
|
3.8
|
7.8
|
1.0
|
|
O
|
A:GLY175
|
3.9
|
8.5
|
1.0
|
|
N
|
A:GLY158
|
3.9
|
9.0
|
1.0
|
|
O
|
A:THR157
|
4.0
|
7.5
|
1.0
|
|
N
|
A:THR176
|
4.0
|
6.2
|
1.0
|
|
CB
|
A:ASP160
|
4.1
|
6.2
|
1.0
|
|
CA
|
A:GLY175
|
4.2
|
8.9
|
1.0
|
|
CA
|
A:THR157
|
4.2
|
7.7
|
1.0
|
|
N
|
A:ASP160
|
4.2
|
4.2
|
1.0
|
|
CA
|
A:GLY158
|
4.2
|
7.7
|
1.0
|
|
N
|
A:GLY175
|
4.3
|
6.7
|
1.0
|
|
N
|
A:THR157
|
4.4
|
7.8
|
1.0
|
|
OD1
|
A:ASP160
|
4.4
|
7.3
|
1.0
|
|
CA
|
A:THR176
|
4.5
|
7.1
|
1.0
|
|
CB
|
A:ASP179
|
4.5
|
6.3
|
1.0
|
|
N
|
A:GLY156
|
4.5
|
8.0
|
1.0
|
|
C
|
A:ALA155
|
4.6
|
7.7
|
1.0
|
|
CB
|
A:ASP177
|
4.6
|
7.3
|
1.0
|
|
CA
|
A:MET174
|
4.6
|
6.5
|
1.0
|
|
N
|
A:ASN159
|
4.6
|
7.8
|
1.0
|
|
O
|
A:ALA155
|
4.6
|
7.7
|
1.0
|
|
N
|
A:ASP177
|
4.7
|
7.7
|
1.0
|
|
CA
|
A:GLY156
|
4.7
|
8.0
|
1.0
|
|
CB
|
A:ALA155
|
4.7
|
6.7
|
1.0
|
|
O
|
A:ASP177
|
4.7
|
5.3
|
1.0
|
|
CA
|
A:CA408
|
4.7
|
4.7
|
1.0
|
|
C
|
A:ASP177
|
4.8
|
7.3
|
1.0
|
|
CB
|
A:MET174
|
4.8
|
4.3
|
1.0
|
|
CA
|
A:ASP177
|
4.9
|
6.5
|
1.0
|
|
CA
|
A:ASP160
|
4.9
|
4.5
|
1.0
|
|
CA
|
A:CA406
|
4.9
|
4.3
|
1.0
|
|
CA
|
A:ASN159
|
4.9
|
5.8
|
1.0
|
|
Calcium binding site 8 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 8 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca408
b:4.7
occ:1.00
|
O
|
A:THR197
|
2.3
|
8.6
|
1.0
|
|
OD1
|
A:ASP200
|
2.3
|
5.7
|
1.0
|
|
OD2
|
A:ASP179
|
2.3
|
6.2
|
1.0
|
|
O
|
A:LEU195
|
2.4
|
7.3
|
1.0
|
|
O
|
A:ASP177
|
2.4
|
5.3
|
1.0
|
|
O
|
A:GLY175
|
2.5
|
8.5
|
1.0
|
|
CG
|
A:ASP200
|
3.0
|
7.3
|
1.0
|
|
OD2
|
A:ASP200
|
3.0
|
8.2
|
1.0
|
|
CG
|
A:ASP179
|
3.5
|
7.5
|
1.0
|
|
C
|
A:THR197
|
3.5
|
8.5
|
1.0
|
|
C
|
A:LEU195
|
3.6
|
7.9
|
1.0
|
|
C
|
A:ASP177
|
3.6
|
7.3
|
1.0
|
|
C
|
A:GLY175
|
3.7
|
8.2
|
1.0
|
|
C
|
A:THR176
|
3.8
|
7.0
|
1.0
|
|
O
|
A:THR176
|
3.8
|
7.7
|
1.0
|
|
O
|
A:ASP196
|
4.0
|
7.4
|
1.0
|
|
C
|
A:ASP196
|
4.0
|
8.0
|
1.0
|
|
N
|
A:ASP177
|
4.1
|
7.7
|
1.0
|
|
CB
|
A:ASP179
|
4.1
|
6.3
|
1.0
|
|
N
|
A:THR197
|
4.2
|
6.9
|
1.0
|
|
N
|
A:ASP179
|
4.2
|
4.6
|
1.0
|
|
CA
|
A:THR176
|
4.3
|
7.1
|
1.0
|
|
CA
|
A:GLY198
|
4.3
|
6.9
|
1.0
|
|
N
|
A:GLY198
|
4.3
|
9.1
|
1.0
|
|
OD1
|
A:ASP179
|
4.4
|
7.7
|
1.0
|
|
N
|
A:ASP196
|
4.4
|
8.1
|
1.0
|
|
CA
|
A:ASP177
|
4.4
|
6.5
|
1.0
|
|
N
|
A:THR176
|
4.5
|
6.2
|
1.0
|
|
CB
|
A:ASP196
|
4.5
|
8.7
|
1.0
|
|
CA
|
A:THR197
|
4.5
|
8.1
|
1.0
|
|
O
|
A:MET174
|
4.5
|
8.1
|
1.0
|
|
CB
|
A:ASP200
|
4.5
|
5.6
|
1.0
|
|
CA
|
A:ASP196
|
4.5
|
6.9
|
1.0
|
|
N
|
A:ASN178
|
4.6
|
5.6
|
1.0
|
|
C
|
A:MET174
|
4.6
|
6.8
|
1.0
|
|
CA
|
A:LEU195
|
4.6
|
6.9
|
1.0
|
|
CB
|
A:MET174
|
4.6
|
4.3
|
1.0
|
|
N
|
A:GLY175
|
4.6
|
6.7
|
1.0
|
|
CA
|
A:CA407
|
4.7
|
4.3
|
1.0
|
|
C
|
A:GLY198
|
4.7
|
7.3
|
1.0
|
|
CA
|
A:ASN178
|
4.8
|
6.2
|
1.0
|
|
CA
|
A:GLY175
|
4.8
|
8.9
|
1.0
|
|
CA
|
A:ASP179
|
4.8
|
4.6
|
1.0
|
|
CA
|
A:CA409
|
4.8
|
4.4
|
1.0
|
|
O
|
A:GLY198
|
4.9
|
7.7
|
1.0
|
|
CB
|
A:LEU195
|
4.9
|
6.2
|
1.0
|
|
C
|
A:ASN178
|
5.0
|
4.5
|
1.0
|
|
Calcium binding site 9 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 9 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca409
b:4.4
occ:1.00
|
O
|
A:GLY214
|
2.3
|
8.1
|
1.0
|
|
O
|
A:THR216
|
2.3
|
7.0
|
1.0
|
|
OD1
|
A:ASP219
|
2.3
|
7.2
|
1.0
|
|
OD2
|
A:ASP200
|
2.3
|
8.2
|
1.0
|
|
O
|
A:GLY198
|
2.4
|
7.7
|
1.0
|
|
O
|
A:ASP196
|
2.4
|
7.4
|
1.0
|
|
OD2
|
A:ASP219
|
3.0
|
7.7
|
1.0
|
|
CG
|
A:ASP219
|
3.0
|
8.4
|
1.0
|
|
CG
|
A:ASP200
|
3.5
|
7.3
|
1.0
|
|
C
|
A:GLY214
|
3.5
|
7.6
|
1.0
|
|
C
|
A:GLY198
|
3.5
|
7.3
|
1.0
|
|
C
|
A:THR216
|
3.5
|
7.2
|
1.0
|
|
C
|
A:ASP196
|
3.6
|
8.0
|
1.0
|
|
C
|
A:GLY215
|
3.8
|
8.2
|
1.0
|
|
C
|
A:THR197
|
3.9
|
8.5
|
1.0
|
|
N
|
A:GLY198
|
4.0
|
9.1
|
1.0
|
|
O
|
A:GLY215
|
4.0
|
7.8
|
1.0
|
|
CB
|
A:ASP200
|
4.1
|
5.6
|
1.0
|
|
O
|
A:THR197
|
4.1
|
8.6
|
1.0
|
|
N
|
A:THR216
|
4.1
|
8.8
|
1.0
|
|
N
|
A:ASP200
|
4.1
|
5.5
|
1.0
|
|
CA
|
A:GLY215
|
4.2
|
8.6
|
1.0
|
|
CA
|
A:THR197
|
4.3
|
8.1
|
1.0
|
|
N
|
A:GLY215
|
4.3
|
7.7
|
1.0
|
|
CA
|
A:GLY198
|
4.3
|
6.9
|
1.0
|
|
CA
|
A:GLY217
|
4.4
|
7.7
|
1.0
|
|
N
|
A:GLY217
|
4.4
|
9.1
|
1.0
|
|
N
|
A:THR197
|
4.4
|
6.9
|
1.0
|
|
OD1
|
A:ASP200
|
4.5
|
5.7
|
1.0
|
|
CB
|
A:ASP219
|
4.5
|
4.8
|
1.0
|
|
CA
|
A:THR216
|
4.5
|
8.8
|
1.0
|
|
C
|
A:LEU195
|
4.5
|
7.9
|
1.0
|
|
O
|
A:LEU195
|
4.5
|
7.3
|
1.0
|
|
N
|
A:ASP196
|
4.5
|
8.1
|
1.0
|
|
CA
|
A:GLY214
|
4.5
|
8.1
|
1.0
|
|
N
|
A:ASP199
|
4.5
|
7.2
|
1.0
|
|
C
|
A:GLY217
|
4.6
|
8.6
|
1.0
|
|
CB
|
A:LEU195
|
4.6
|
6.2
|
1.0
|
|
O
|
A:GLY217
|
4.7
|
7.6
|
1.0
|
|
CA
|
A:ASP196
|
4.7
|
6.9
|
1.0
|
|
CA
|
A:CA410
|
4.7
|
4.6
|
1.0
|
|
CA
|
A:ASP199
|
4.8
|
6.6
|
1.0
|
|
CA
|
A:ASP200
|
4.8
|
6.2
|
1.0
|
|
CA
|
A:CA408
|
4.8
|
4.7
|
1.0
|
|
C
|
A:ASP199
|
4.9
|
7.4
|
1.0
|
|
Calcium binding site 10 out
of 52 in 3p4g
Go back to
Calcium Binding Sites List in 3p4g
Calcium binding site 10 out
of 52 in the X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of X-Ray Crystal Structure of A Hyperactive, CA2+-Dependent, Beta-Helical Antifreeze Protein From An Antarctic Bacterium within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca410
b:4.6
occ:1.00
|
O
|
A:THR235
|
2.3
|
8.9
|
1.0
|
|
O
|
A:GLY233
|
2.4
|
8.5
|
1.0
|
|
OD2
|
A:ASP219
|
2.4
|
7.7
|
1.0
|
|
O
|
A:GLY217
|
2.4
|
7.6
|
1.0
|
|
OD1
|
A:ASP238
|
2.4
|
7.1
|
1.0
|
|
O
|
A:GLY215
|
2.5
|
7.8
|
1.0
|
|
OD2
|
A:ASP238
|
2.9
|
7.3
|
1.0
|
|
CG
|
A:ASP238
|
3.0
|
5.3
|
1.0
|
|
CG
|
A:ASP219
|
3.5
|
8.4
|
1.0
|
|
C
|
A:GLY233
|
3.5
|
7.9
|
1.0
|
|
C
|
A:THR235
|
3.5
|
6.9
|
1.0
|
|
C
|
A:GLY217
|
3.6
|
8.6
|
1.0
|
|
C
|
A:GLY215
|
3.6
|
8.2
|
1.0
|
|
C
|
A:GLY234
|
3.8
|
7.3
|
1.0
|
|
C
|
A:THR216
|
3.8
|
7.2
|
1.0
|
|
O
|
A:THR216
|
3.9
|
7.0
|
1.0
|
|
O
|
A:GLY234
|
3.9
|
7.8
|
1.0
|
|
CA
|
A:GLY234
|
4.1
|
7.1
|
1.0
|
|
N
|
A:GLY217
|
4.1
|
9.1
|
1.0
|
|
N
|
A:THR235
|
4.1
|
7.2
|
1.0
|
|
CB
|
A:ASP219
|
4.2
|
4.8
|
1.0
|
|
N
|
A:ASP219
|
4.2
|
6.0
|
1.0
|
|
N
|
A:GLY234
|
4.2
|
8.2
|
1.0
|
|
CA
|
A:THR216
|
4.2
|
8.8
|
1.0
|
|
C
|
A:GLY214
|
4.3
|
7.6
|
1.0
|
|
CA
|
A:GLY236
|
4.3
|
6.8
|
1.0
|
|
N
|
A:GLY236
|
4.4
|
7.8
|
1.0
|
|
O
|
A:GLY214
|
4.4
|
8.1
|
1.0
|
|
CA
|
A:GLY217
|
4.4
|
7.7
|
1.0
|
|
N
|
A:THR216
|
4.4
|
8.8
|
1.0
|
|
N
|
A:GLY215
|
4.4
|
7.7
|
1.0
|
|
OD1
|
A:ASP219
|
4.5
|
7.2
|
1.0
|
|
CB
|
A:ASP238
|
4.5
|
6.3
|
1.0
|
|
N
|
A:ASN218
|
4.5
|
7.2
|
1.0
|
|
CA
|
A:THR235
|
4.5
|
6.8
|
1.0
|
|
CA
|
A:GLY233
|
4.6
|
8.1
|
1.0
|
|
C
|
A:GLY236
|
4.6
|
6.9
|
1.0
|
|
CA
|
A:ASN218
|
4.7
|
7.1
|
1.0
|
|
CA
|
A:GLY215
|
4.7
|
8.6
|
1.0
|
|
CA
|
A:CA411
|
4.7
|
3.7
|
1.0
|
|
CA
|
A:GLY214
|
4.7
|
8.1
|
1.0
|
|
CA
|
A:CA409
|
4.7
|
4.4
|
1.0
|
|
O
|
A:GLY236
|
4.7
|
5.9
|
1.0
|
|
CA
|
A:ASP219
|
4.9
|
4.5
|
1.0
|
|
C
|
A:ASN218
|
4.9
|
7.2
|
1.0
|
|
Reference:
C.P.Garnham,
R.L.Campbell,
P.L.Davies.
Anchored Clathrate Waters Bind Antifreeze Proteins to Ice. Proc.Natl.Acad.Sci.Usa V. 108 7363 2011.
ISSN: ISSN 0027-8424
PubMed: 21482800
DOI: 10.1073/PNAS.1100429108
Page generated: Sat Jul 13 16:29:38 2024
|
