Calcium in PDB 6opm: Casposase Bound to Integration Product
Protein crystallography data
The structure of Casposase Bound to Integration Product, PDB code: 6opm
was solved by
F.Dyda,
A.B.Hickman,
S.Kailasan,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
29.89 /
3.10
|
Space group
|
P 43 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
106.390,
106.390,
423.360,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.8 /
25.6
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Casposase Bound to Integration Product
(pdb code 6opm). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the
Casposase Bound to Integration Product, PDB code: 6opm:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
Calcium binding site 1 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 1 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca501
b:0.1
occ:1.00
|
OD2
|
A:ASP46
|
3.0
|
0.4
|
1.0
|
CA
|
A:MSE1
|
3.7
|
0.5
|
1.0
|
O
|
A:ASP44
|
3.8
|
0.4
|
1.0
|
CG
|
A:ASP46
|
4.0
|
0.1
|
1.0
|
OE1
|
D:GLN189
|
4.0
|
0.3
|
1.0
|
CB
|
A:MSE1
|
4.1
|
0.7
|
1.0
|
CB
|
A:ASP46
|
4.2
|
0.8
|
1.0
|
N
|
A:MSE1
|
4.2
|
0.8
|
1.0
|
CG
|
A:MSE1
|
4.3
|
0.3
|
1.0
|
N
|
A:LYS2
|
4.5
|
0.1
|
1.0
|
OP2
|
F:DC21
|
4.6
|
0.7
|
1.0
|
N
|
A:ASP46
|
4.7
|
0.9
|
1.0
|
CA
|
A:ASP46
|
4.7
|
0.7
|
1.0
|
C
|
A:MSE1
|
4.7
|
0.1
|
1.0
|
CA
|
A:CA502
|
4.9
|
0.3
|
1.0
|
C
|
A:ASP44
|
5.0
|
0.8
|
1.0
|
|
Calcium binding site 2 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 2 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca502
b:0.3
occ:1.00
|
OD2
|
A:ASP46
|
3.2
|
0.4
|
1.0
|
CG
|
A:ASP46
|
3.5
|
0.1
|
1.0
|
OD1
|
A:ASP46
|
3.5
|
0.2
|
1.0
|
ND2
|
A:ASN69
|
3.7
|
0.3
|
1.0
|
NZ
|
A:LYS217
|
3.9
|
0.1
|
1.0
|
OP2
|
F:DC21
|
4.0
|
0.7
|
1.0
|
O
|
A:ASN69
|
4.2
|
0.5
|
1.0
|
CA
|
A:ASP46
|
4.4
|
0.7
|
1.0
|
CB
|
A:ASP46
|
4.5
|
0.8
|
1.0
|
CE
|
A:LYS217
|
4.6
|
0.5
|
1.0
|
CD
|
A:LYS217
|
4.7
|
0.1
|
1.0
|
O
|
A:ASP46
|
4.7
|
0.6
|
1.0
|
CG
|
A:ASN69
|
4.9
|
0.7
|
1.0
|
CA
|
A:CA501
|
4.9
|
0.1
|
1.0
|
|
Calcium binding site 3 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 3 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca501
b:0.5
occ:1.00
|
OP2
|
E:DC21
|
2.8
|
0.4
|
1.0
|
OD1
|
C:ASP46
|
3.2
|
0.4
|
1.0
|
CE
|
C:LYS217
|
3.5
|
0.6
|
1.0
|
O
|
C:HOH604
|
3.7
|
1.0
|
1.0
|
P
|
E:DC21
|
4.1
|
0.2
|
1.0
|
CG
|
C:ASP46
|
4.3
|
0.8
|
1.0
|
CD
|
C:LYS217
|
4.5
|
0.8
|
1.0
|
NZ
|
C:LYS217
|
4.5
|
0.9
|
1.0
|
CB
|
C:ASP46
|
4.6
|
0.7
|
1.0
|
O3'
|
E:DG20
|
4.6
|
0.6
|
1.0
|
OP1
|
E:DC21
|
4.6
|
0.4
|
1.0
|
C3'
|
E:DG20
|
4.6
|
0.1
|
1.0
|
CA
|
C:CA502
|
4.7
|
0.5
|
1.0
|
|
Calcium binding site 4 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 4 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca502
b:0.5
occ:1.00
|
O
|
C:HOH602
|
2.5
|
0.4
|
1.0
|
OD1
|
C:ASP46
|
2.5
|
0.4
|
1.0
|
OD2
|
C:ASP46
|
3.0
|
0.5
|
1.0
|
O
|
C:HOH604
|
3.1
|
1.0
|
1.0
|
CG
|
C:ASP46
|
3.1
|
0.8
|
1.0
|
CA
|
C:MSE1
|
3.6
|
0.6
|
1.0
|
N
|
C:MSE1
|
3.8
|
0.2
|
1.0
|
OP2
|
E:DC21
|
3.9
|
0.4
|
1.0
|
CB
|
C:MSE1
|
4.0
|
0.9
|
1.0
|
CG
|
C:MSE1
|
4.2
|
0.3
|
1.0
|
CB
|
C:ASP46
|
4.6
|
0.7
|
1.0
|
O5'
|
E:DC21
|
4.7
|
0.0
|
1.0
|
CA
|
C:CA501
|
4.7
|
0.5
|
1.0
|
P
|
E:DC21
|
4.7
|
0.2
|
1.0
|
C
|
C:MSE1
|
4.8
|
0.6
|
1.0
|
N
|
C:LYS2
|
4.8
|
0.9
|
1.0
|
O
|
C:ASP44
|
4.9
|
0.7
|
1.0
|
|
Calcium binding site 5 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 5 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca101
b:0.4
occ:1.00
|
O2
|
E:DC7
|
2.6
|
0.9
|
1.0
|
OP1
|
E:DC7
|
2.6
|
0.3
|
1.0
|
O
|
E:HOH203
|
2.8
|
78.4
|
1.0
|
O
|
F:HOH201
|
2.8
|
0.6
|
1.0
|
C2
|
E:DC7
|
3.6
|
0.7
|
1.0
|
N3
|
E:DC7
|
4.0
|
0.6
|
1.0
|
P
|
E:DC7
|
4.1
|
0.9
|
1.0
|
N4
|
E:DC8
|
4.1
|
0.8
|
1.0
|
C5'
|
E:DC7
|
4.3
|
0.8
|
1.0
|
O5'
|
E:DC7
|
4.6
|
0.6
|
1.0
|
C5
|
E:DC8
|
4.6
|
1.0
|
1.0
|
C4
|
E:DC8
|
4.7
|
0.1
|
1.0
|
C3'
|
E:DC6
|
4.7
|
0.7
|
1.0
|
O3'
|
E:DC6
|
4.8
|
0.5
|
1.0
|
O5'
|
E:DC6
|
4.8
|
0.6
|
1.0
|
N1
|
E:DC7
|
4.9
|
0.0
|
1.0
|
|
Calcium binding site 6 out
of 6 in 6opm
Go back to
Calcium Binding Sites List in 6opm
Calcium binding site 6 out
of 6 in the Casposase Bound to Integration Product
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Casposase Bound to Integration Product within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Ca101
b:98.8
occ:1.00
|
OP1
|
F:DC7
|
2.2
|
96.3
|
1.0
|
O
|
F:HOH205
|
2.3
|
87.8
|
1.0
|
O2
|
F:DC7
|
2.5
|
98.5
|
1.0
|
O
|
F:HOH204
|
2.8
|
65.8
|
1.0
|
O
|
F:HOH206
|
2.9
|
92.0
|
1.0
|
O
|
E:HOH202
|
3.2
|
92.6
|
1.0
|
C2
|
F:DC7
|
3.5
|
99.5
|
1.0
|
P
|
F:DC7
|
3.6
|
94.0
|
1.0
|
N3
|
F:DC7
|
3.8
|
0.9
|
1.0
|
C5'
|
F:DC7
|
4.1
|
96.7
|
1.0
|
O5'
|
F:DC7
|
4.2
|
94.1
|
1.0
|
O3'
|
F:DC6
|
4.4
|
95.9
|
1.0
|
C3'
|
F:DC6
|
4.4
|
97.2
|
1.0
|
N4
|
F:DC8
|
4.5
|
0.8
|
1.0
|
N1
|
F:DC7
|
4.7
|
98.3
|
1.0
|
OP2
|
F:DC7
|
4.7
|
89.9
|
1.0
|
O4'
|
F:DC7
|
4.8
|
97.1
|
1.0
|
O5'
|
F:DC6
|
4.9
|
96.1
|
1.0
|
CE
|
B:MSE194
|
4.9
|
0.2
|
1.0
|
|
Reference:
F.Dyda,
A.B.Hickman,
S.Kailasan.
Casposase Bound to Integration Product To Be Published.
Page generated: Tue Jul 16 12:34:00 2024
|