Sodium in PDB 6bg4: Caspase-3 Mutant- T152D
Enzymatic activity of Caspase-3 Mutant- T152D
All present enzymatic activity of Caspase-3 Mutant- T152D:
3.4.22.56;
Protein crystallography data
The structure of Caspase-3 Mutant- T152D, PDB code: 6bg4
was solved by
M.E.Thomas,
R.Grinshpon,
P.D.Swartz,
A.C.Clark,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
36.31 /
1.87
|
|
Space group
|
C 1 2 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
109.209,
96.685,
68.626,
90.00,
126.76,
90.00
|
|
R / Rfree (%)
|
16.4 /
20.7
|
Other elements in 6bg4:
The structure of Caspase-3 Mutant- T152D also contains other interesting chemical elements:
Sodium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
13;
Binding sites:
The binding sites of Sodium atom in the Caspase-3 Mutant- T152D
(pdb code 6bg4). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 13 binding sites of Sodium where determined in the
Caspase-3 Mutant- T152D, PDB code: 6bg4:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Sodium binding site 1 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 1 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 1 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na301
b:18.8
occ:1.00
|
O
|
E:TRP206
|
2.8
|
12.1
|
1.0
|
|
OE1
|
A:GLN161
|
2.8
|
11.1
|
1.0
|
|
N
|
E:PHE215
|
2.9
|
8.4
|
1.0
|
|
NE2
|
E:GLN261
|
3.0
|
11.8
|
1.0
|
|
CB
|
E:PHE215
|
3.2
|
10.0
|
1.0
|
|
OG
|
E:SER205
|
3.3
|
11.7
|
1.0
|
|
N
|
E:TRP214
|
3.4
|
12.6
|
1.0
|
|
CD
|
A:GLN161
|
3.5
|
13.8
|
1.0
|
|
NE2
|
A:GLN161
|
3.5
|
12.4
|
1.0
|
|
CB
|
E:SER213
|
3.7
|
14.3
|
1.0
|
|
CA
|
E:PHE215
|
3.7
|
11.3
|
1.0
|
|
CB
|
E:TRP214
|
3.7
|
9.2
|
1.0
|
|
C
|
E:TRP214
|
3.8
|
12.0
|
1.0
|
|
CA
|
E:TRP214
|
3.9
|
10.5
|
1.0
|
|
C
|
E:TRP206
|
3.9
|
11.6
|
1.0
|
|
CD
|
E:GLN261
|
3.9
|
11.7
|
1.0
|
|
N
|
E:TRP206
|
3.9
|
10.7
|
1.0
|
|
OE1
|
E:GLN261
|
4.0
|
14.5
|
1.0
|
|
OG
|
E:SER213
|
4.0
|
11.2
|
1.0
|
|
C
|
E:SER213
|
4.0
|
11.8
|
1.0
|
|
CB
|
E:SER198
|
4.2
|
11.6
|
1.0
|
|
CA
|
E:SER213
|
4.3
|
13.4
|
1.0
|
|
CA
|
E:TRP206
|
4.4
|
9.7
|
1.0
|
|
CG
|
E:TRP214
|
4.5
|
13.3
|
1.0
|
|
OG
|
E:SER198
|
4.6
|
12.9
|
1.0
|
|
CG
|
E:PHE215
|
4.6
|
11.2
|
1.0
|
|
CB
|
E:SER205
|
4.6
|
10.3
|
1.0
|
|
C
|
E:SER205
|
4.7
|
11.8
|
1.0
|
|
C
|
E:PHE215
|
4.8
|
13.8
|
1.0
|
|
N
|
E:ILE216
|
4.8
|
11.9
|
1.0
|
|
O
|
E:SER198
|
4.8
|
10.9
|
1.0
|
|
CG
|
A:GLN161
|
4.9
|
10.1
|
1.0
|
|
O
|
E:SER213
|
4.9
|
13.7
|
1.0
|
|
CB
|
E:TRP206
|
5.0
|
9.7
|
1.0
|
|
N
|
E:ARG207
|
5.0
|
11.1
|
1.0
|
|
Sodium binding site 2 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 2 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 2 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na303
b:22.1
occ:1.00
|
OE2
|
A:GLU124
|
2.5
|
18.1
|
1.0
|
|
O
|
A:HOH516
|
2.7
|
26.4
|
1.0
|
|
O
|
A:HOH520
|
2.8
|
18.5
|
1.0
|
|
O
|
E:HOH403
|
2.8
|
20.1
|
1.0
|
|
CD
|
A:GLU124
|
3.5
|
16.9
|
1.0
|
|
CA
|
A:GLY125
|
3.6
|
12.1
|
1.0
|
|
N
|
A:GLY125
|
3.6
|
14.5
|
1.0
|
|
O
|
A:HOH480
|
3.8
|
21.0
|
1.0
|
|
CG
|
A:GLU124
|
3.9
|
13.8
|
1.0
|
|
O
|
B:HOH393
|
4.0
|
23.2
|
1.0
|
|
O
|
A:HOH525
|
4.1
|
23.5
|
1.0
|
|
O
|
A:HOH459
|
4.1
|
12.3
|
1.0
|
|
NH2
|
A:ARG164
|
4.1
|
11.1
|
1.0
|
|
O
|
A:HOH504
|
4.2
|
18.7
|
1.0
|
|
O
|
B:HOH414
|
4.4
|
26.0
|
1.0
|
|
C
|
A:GLU124
|
4.4
|
15.6
|
1.0
|
|
OE1
|
A:GLU124
|
4.6
|
21.8
|
1.0
|
|
OH
|
E:TYR197
|
4.7
|
18.7
|
1.0
|
|
O
|
E:HOH456
|
4.8
|
15.8
|
1.0
|
|
C
|
A:GLY125
|
5.0
|
13.0
|
1.0
|
|
Sodium binding site 3 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 3 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 3 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Na301
b:18.0
occ:1.00
|
O
|
E:HOH418
|
2.6
|
16.8
|
1.0
|
|
O
|
E:LYS260
|
2.6
|
13.3
|
1.0
|
|
N
|
A:ASP169
|
3.0
|
13.5
|
1.0
|
|
NE1
|
E:TRP206
|
3.1
|
13.4
|
1.0
|
|
CB
|
E:LYS259
|
3.6
|
11.3
|
1.0
|
|
CA
|
A:LEU168
|
3.7
|
13.4
|
1.0
|
|
C
|
E:LYS260
|
3.7
|
8.6
|
1.0
|
|
CD2
|
A:LEU168
|
3.8
|
14.9
|
1.0
|
|
O
|
A:ASP169
|
3.8
|
14.2
|
1.0
|
|
C
|
A:LEU168
|
3.8
|
12.4
|
1.0
|
|
CB
|
A:ASP169
|
3.8
|
13.6
|
1.0
|
|
CD1
|
E:TRP206
|
3.9
|
10.5
|
1.0
|
|
CA
|
A:ASP169
|
3.9
|
12.6
|
1.0
|
|
N
|
E:LYS260
|
3.9
|
10.4
|
1.0
|
|
CB
|
A:LEU168
|
4.1
|
16.1
|
1.0
|
|
CE2
|
E:TRP206
|
4.2
|
10.7
|
1.0
|
|
C
|
A:ASP169
|
4.3
|
15.8
|
1.0
|
|
C
|
E:LYS259
|
4.4
|
13.2
|
1.0
|
|
CA
|
E:LYS260
|
4.5
|
12.5
|
1.0
|
|
CG
|
E:LYS259
|
4.6
|
12.0
|
1.0
|
|
CA
|
E:LYS259
|
4.6
|
13.6
|
1.0
|
|
CG
|
A:LEU168
|
4.6
|
16.1
|
1.0
|
|
CZ2
|
E:TRP206
|
4.7
|
11.2
|
1.0
|
|
O
|
A:GLU167
|
4.8
|
11.7
|
1.0
|
|
N
|
E:GLN261
|
4.8
|
10.3
|
1.0
|
|
O
|
E:TYR204
|
5.0
|
14.0
|
1.0
|
|
CA
|
E:GLN261
|
5.0
|
11.2
|
1.0
|
|
N
|
A:LEU168
|
5.0
|
15.2
|
1.0
|
|
Sodium binding site 4 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 4 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 4 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Na302
b:18.4
occ:1.00
|
OD1
|
E:ASN240
|
2.7
|
12.3
|
1.0
|
|
O
|
E:HOH444
|
2.9
|
12.9
|
1.0
|
|
O
|
E:LEU236
|
3.0
|
12.4
|
1.0
|
|
CG
|
E:ASN240
|
3.6
|
11.4
|
1.0
|
|
CG1
|
E:ILE265
|
3.7
|
10.3
|
1.0
|
|
CB
|
E:PRO263
|
3.7
|
8.8
|
1.0
|
|
CB
|
E:VAL239
|
3.8
|
11.8
|
1.0
|
|
CG1
|
E:VAL239
|
3.8
|
7.4
|
1.0
|
|
CE1
|
E:PHE215
|
3.8
|
12.2
|
1.0
|
|
C
|
E:LEU236
|
3.8
|
13.2
|
1.0
|
|
CB
|
E:LEU236
|
3.9
|
13.3
|
1.0
|
|
N
|
E:ASN240
|
4.0
|
11.2
|
1.0
|
|
CD2
|
E:LEU236
|
4.0
|
13.4
|
1.0
|
|
CA
|
E:LEU236
|
4.0
|
10.9
|
1.0
|
|
CD1
|
E:ILE265
|
4.1
|
10.1
|
1.0
|
|
CG
|
E:PRO263
|
4.2
|
11.4
|
1.0
|
|
ND2
|
E:ASN240
|
4.4
|
10.8
|
1.0
|
|
CG
|
E:LEU236
|
4.5
|
13.9
|
1.0
|
|
CA
|
E:ASN240
|
4.5
|
9.9
|
1.0
|
|
C
|
E:VAL239
|
4.5
|
12.8
|
1.0
|
|
CB
|
E:ASN240
|
4.6
|
10.4
|
1.0
|
|
CZ
|
E:PHE215
|
4.6
|
11.3
|
1.0
|
|
CD1
|
E:PHE215
|
4.7
|
12.0
|
1.0
|
|
CA
|
E:VAL239
|
4.7
|
10.1
|
1.0
|
|
CG2
|
E:VAL239
|
4.8
|
12.6
|
1.0
|
|
N
|
E:THR237
|
5.0
|
11.8
|
1.0
|
|
CA
|
E:PRO263
|
5.0
|
9.4
|
1.0
|
|
Sodium binding site 5 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 5 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 5 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Na303
b:19.9
occ:1.00
|
O
|
A:HOH444
|
2.6
|
14.2
|
1.0
|
|
OG1
|
E:THR199
|
2.8
|
11.4
|
1.0
|
|
N
|
E:ILE262
|
3.0
|
9.5
|
1.0
|
|
O
|
E:HOH418
|
3.1
|
16.8
|
1.0
|
|
CA
|
E:GLN261
|
3.4
|
11.2
|
1.0
|
|
O
|
E:ILE262
|
3.5
|
11.4
|
1.0
|
|
CG
|
E:GLN261
|
3.6
|
11.9
|
1.0
|
|
C
|
E:GLN261
|
3.7
|
13.3
|
1.0
|
|
CB
|
E:GLN261
|
3.9
|
9.2
|
1.0
|
|
N
|
E:ALA200
|
3.9
|
11.8
|
1.0
|
|
CB
|
E:TYR203
|
4.0
|
13.0
|
1.0
|
|
CB
|
E:THR199
|
4.1
|
10.8
|
1.0
|
|
CA
|
E:ILE262
|
4.1
|
10.0
|
1.0
|
|
CG
|
E:TYR203
|
4.2
|
14.2
|
1.0
|
|
CG2
|
E:ILE262
|
4.2
|
12.1
|
1.0
|
|
C
|
E:ILE262
|
4.2
|
11.3
|
1.0
|
|
O
|
E:LYS260
|
4.2
|
13.3
|
1.0
|
|
O
|
E:TYR204
|
4.3
|
14.0
|
1.0
|
|
CD2
|
E:TYR203
|
4.3
|
13.6
|
1.0
|
|
CA
|
E:THR199
|
4.4
|
10.1
|
1.0
|
|
CB
|
E:ALA200
|
4.4
|
13.5
|
1.0
|
|
N
|
E:GLN261
|
4.5
|
10.3
|
1.0
|
|
CB
|
A:ASP169
|
4.6
|
13.6
|
1.0
|
|
OD2
|
A:ASP169
|
4.6
|
14.8
|
1.0
|
|
CB
|
E:ILE262
|
4.7
|
10.4
|
1.0
|
|
C
|
E:THR199
|
4.7
|
14.4
|
1.0
|
|
CD
|
E:GLN261
|
4.8
|
11.7
|
1.0
|
|
C
|
E:LYS260
|
4.8
|
8.6
|
1.0
|
|
CA
|
E:ALA200
|
4.8
|
12.6
|
1.0
|
|
CD1
|
E:TYR203
|
4.8
|
12.9
|
1.0
|
|
O
|
E:GLN261
|
4.9
|
11.1
|
1.0
|
|
Sodium binding site 6 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 6 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 6 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na201
b:18.7
occ:1.00
|
O
|
F:TRP206
|
2.7
|
11.8
|
1.0
|
|
OE1
|
B:GLN161
|
2.8
|
12.3
|
1.0
|
|
N
|
F:PHE215
|
2.9
|
10.8
|
1.0
|
|
NE2
|
F:GLN261
|
3.0
|
13.8
|
1.0
|
|
CB
|
F:PHE215
|
3.3
|
9.3
|
1.0
|
|
OG
|
F:SER205
|
3.3
|
11.5
|
1.0
|
|
N
|
F:TRP214
|
3.4
|
10.2
|
1.0
|
|
CD
|
B:GLN161
|
3.5
|
11.7
|
1.0
|
|
NE2
|
B:GLN161
|
3.5
|
11.8
|
1.0
|
|
CB
|
F:SER213
|
3.6
|
14.7
|
1.0
|
|
CA
|
F:PHE215
|
3.7
|
11.7
|
1.0
|
|
CB
|
F:TRP214
|
3.8
|
7.4
|
1.0
|
|
C
|
F:TRP206
|
3.8
|
11.8
|
1.0
|
|
C
|
F:TRP214
|
3.9
|
16.5
|
1.0
|
|
CA
|
F:TRP214
|
3.9
|
12.0
|
1.0
|
|
CD
|
F:GLN261
|
3.9
|
12.6
|
1.0
|
|
N
|
F:TRP206
|
3.9
|
8.7
|
1.0
|
|
OE1
|
F:GLN261
|
4.0
|
13.6
|
1.0
|
|
C
|
F:SER213
|
4.0
|
13.0
|
1.0
|
|
OG
|
F:SER213
|
4.1
|
11.7
|
1.0
|
|
CB
|
F:SER198
|
4.2
|
10.6
|
1.0
|
|
CA
|
F:SER213
|
4.2
|
10.5
|
1.0
|
|
CA
|
F:TRP206
|
4.4
|
10.0
|
1.0
|
|
OG
|
F:SER198
|
4.6
|
11.0
|
1.0
|
|
CB
|
F:SER205
|
4.6
|
10.0
|
1.0
|
|
CG
|
F:TRP214
|
4.6
|
14.5
|
1.0
|
|
CG
|
F:PHE215
|
4.6
|
11.0
|
1.0
|
|
C
|
F:SER205
|
4.7
|
11.1
|
1.0
|
|
N
|
F:ILE216
|
4.8
|
10.8
|
1.0
|
|
O
|
F:SER213
|
4.8
|
14.3
|
1.0
|
|
C
|
F:PHE215
|
4.8
|
12.9
|
1.0
|
|
O
|
F:SER198
|
4.8
|
12.0
|
1.0
|
|
CG
|
B:GLN161
|
4.9
|
10.0
|
1.0
|
|
CB
|
F:TRP206
|
4.9
|
8.3
|
1.0
|
|
N
|
F:ARG207
|
4.9
|
13.0
|
1.0
|
|
Sodium binding site 7 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 7 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 7 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na202
b:20.6
occ:1.00
|
OG1
|
B:THR67
|
2.7
|
12.5
|
1.0
|
|
NH2
|
B:ARG64
|
2.7
|
10.0
|
1.0
|
|
OD2
|
B:ASP70
|
2.8
|
17.5
|
1.0
|
|
CB
|
B:THR67
|
3.4
|
13.2
|
1.0
|
|
CB
|
B:LEU119
|
3.5
|
12.9
|
1.0
|
|
CA
|
B:THR67
|
3.6
|
15.3
|
1.0
|
|
CZ
|
B:ARG64
|
3.6
|
12.3
|
1.0
|
|
CG
|
B:ASP70
|
3.7
|
13.5
|
1.0
|
|
NH1
|
B:ARG64
|
3.7
|
13.7
|
1.0
|
|
CD2
|
B:LEU119
|
3.8
|
10.8
|
1.0
|
|
CB
|
B:ASP70
|
3.8
|
11.3
|
1.0
|
|
CG
|
B:GLN161
|
3.8
|
10.0
|
1.0
|
|
CD1
|
B:LEU119
|
3.9
|
14.4
|
1.0
|
|
CG
|
B:LEU119
|
3.9
|
10.9
|
1.0
|
|
O
|
B:THR67
|
4.3
|
13.3
|
1.0
|
|
CA
|
B:LEU119
|
4.4
|
11.4
|
1.0
|
|
C
|
B:THR67
|
4.5
|
17.4
|
1.0
|
|
OG
|
F:SER213
|
4.5
|
11.7
|
1.0
|
|
CD
|
F:ARG207
|
4.5
|
12.7
|
1.0
|
|
CB
|
B:GLN161
|
4.5
|
11.1
|
1.0
|
|
N
|
B:THR67
|
4.6
|
12.8
|
1.0
|
|
CB
|
F:SER213
|
4.7
|
14.7
|
1.0
|
|
OD1
|
B:ASP70
|
4.8
|
12.4
|
1.0
|
|
CG2
|
B:THR67
|
4.8
|
15.2
|
1.0
|
|
NE
|
B:ARG64
|
4.9
|
12.7
|
1.0
|
|
C
|
B:LEU119
|
4.9
|
12.7
|
1.0
|
|
OD2
|
D:ASP5
|
4.9
|
20.3
|
1.0
|
|
Sodium binding site 8 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 8 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 8 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na203
b:24.1
occ:1.00
|
O
|
F:HOH430
|
2.6
|
13.9
|
1.0
|
|
OD2
|
B:ASP169
|
2.8
|
14.5
|
1.0
|
|
CG
|
E:GLU190
|
3.4
|
15.6
|
1.0
|
|
CD2
|
F:TYR203
|
3.4
|
11.8
|
1.0
|
|
CE2
|
F:TYR203
|
3.5
|
12.0
|
1.0
|
|
CB
|
E:GLU190
|
3.5
|
11.5
|
1.0
|
|
CG
|
F:TYR203
|
3.5
|
10.9
|
1.0
|
|
CG
|
B:ASP169
|
3.6
|
15.3
|
1.0
|
|
CB
|
B:ASP169
|
3.6
|
13.1
|
1.0
|
|
CZ
|
F:TYR203
|
3.7
|
14.2
|
1.0
|
|
CD1
|
F:TYR203
|
3.7
|
14.9
|
1.0
|
|
CG2
|
F:ILE262
|
3.7
|
9.2
|
1.0
|
|
CB
|
F:ALA200
|
3.8
|
12.5
|
1.0
|
|
CE1
|
F:TYR203
|
3.8
|
15.3
|
1.0
|
|
CB
|
F:TYR203
|
4.3
|
11.4
|
1.0
|
|
N
|
F:ILE262
|
4.3
|
12.6
|
1.0
|
|
OH
|
F:TYR203
|
4.4
|
15.3
|
1.0
|
|
O
|
F:HOH421
|
4.6
|
18.2
|
1.0
|
|
CD
|
E:GLU190
|
4.7
|
23.7
|
1.0
|
|
CA
|
E:GLU190
|
4.8
|
12.8
|
1.0
|
|
N
|
E:GLU190
|
4.8
|
16.1
|
1.0
|
|
CA
|
B:ASP169
|
4.8
|
14.5
|
1.0
|
|
OD1
|
B:ASP169
|
4.8
|
15.8
|
1.0
|
|
N
|
F:ALA200
|
4.8
|
10.3
|
1.0
|
|
CB
|
F:ILE262
|
4.8
|
8.6
|
1.0
|
|
O
|
F:ILE262
|
4.9
|
9.6
|
1.0
|
|
CB
|
E:PRO188
|
4.9
|
10.7
|
1.0
|
|
CA
|
F:ALA200
|
4.9
|
12.0
|
1.0
|
|
OG1
|
F:THR199
|
5.0
|
11.7
|
1.0
|
|
CA
|
F:GLN261
|
5.0
|
11.9
|
1.0
|
|
Sodium binding site 9 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 9 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 9 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Na301
b:21.8
occ:1.00
|
O
|
F:HOH425
|
2.7
|
15.0
|
1.0
|
|
OD2
|
F:ASP192
|
2.8
|
15.9
|
1.0
|
|
NZ
|
B:LYS156
|
2.8
|
13.2
|
1.0
|
|
N
|
B:GLY153
|
2.8
|
11.3
|
1.0
|
|
O
|
F:ALA191
|
3.4
|
15.4
|
1.0
|
|
CD1
|
F:ILE187
|
3.5
|
20.0
|
1.0
|
|
CB
|
F:ASP192
|
3.5
|
14.0
|
1.0
|
|
CG
|
F:ASP192
|
3.5
|
13.2
|
1.0
|
|
CA
|
B:GLY153
|
3.6
|
12.5
|
1.0
|
|
C
|
B:ASP152
|
3.7
|
14.6
|
1.0
|
|
CA
|
B:ASP152
|
3.7
|
15.5
|
1.0
|
|
CE
|
B:LYS156
|
3.8
|
12.1
|
1.0
|
|
O
|
B:LEU151
|
3.9
|
12.6
|
1.0
|
|
N
|
B:LYS154
|
4.2
|
15.1
|
1.0
|
|
C
|
F:ALA191
|
4.2
|
14.7
|
1.0
|
|
C
|
B:GLY153
|
4.3
|
13.0
|
1.0
|
|
O
|
B:HOH366
|
4.3
|
13.7
|
1.0
|
|
O
|
B:LYS154
|
4.4
|
12.3
|
1.0
|
|
OD1
|
B:ASP152
|
4.6
|
20.3
|
1.0
|
|
N
|
B:ASP152
|
4.6
|
15.0
|
1.0
|
|
C
|
B:LEU151
|
4.6
|
16.4
|
1.0
|
|
O
|
F:HOH413
|
4.7
|
18.7
|
1.0
|
|
CA
|
F:ASP192
|
4.7
|
14.0
|
1.0
|
|
CB
|
B:ASP152
|
4.7
|
18.2
|
1.0
|
|
OD1
|
F:ASP192
|
4.7
|
13.6
|
1.0
|
|
CA
|
B:GLY145
|
4.8
|
14.6
|
1.0
|
|
N
|
F:ASP192
|
4.8
|
13.9
|
1.0
|
|
CG1
|
F:ILE187
|
4.8
|
17.0
|
1.0
|
|
O
|
B:ASP152
|
4.9
|
18.2
|
1.0
|
|
CB
|
F:ALA191
|
4.9
|
11.9
|
1.0
|
|
Sodium binding site 10 out
of 13 in 6bg4
Go back to
Sodium Binding Sites List in 6bg4
Sodium binding site 10 out
of 13 in the Caspase-3 Mutant- T152D
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 10 of Caspase-3 Mutant- T152D within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Na302
b:19.9
occ:1.00
|
O
|
F:LYS260
|
2.6
|
12.7
|
1.0
|
|
O
|
F:HOH421
|
2.7
|
18.2
|
1.0
|
|
N
|
B:ASP169
|
3.0
|
15.0
|
1.0
|
|
NE1
|
F:TRP206
|
3.1
|
12.4
|
1.0
|
|
CB
|
F:LYS259
|
3.6
|
11.1
|
1.0
|
|
CA
|
B:LEU168
|
3.7
|
11.4
|
1.0
|
|
CD2
|
B:LEU168
|
3.8
|
14.7
|
1.0
|
|
C
|
F:LYS260
|
3.8
|
10.4
|
1.0
|
|
CD1
|
F:TRP206
|
3.8
|
10.7
|
1.0
|
|
N
|
F:LYS260
|
3.8
|
14.2
|
1.0
|
|
O
|
B:ASP169
|
3.8
|
15.5
|
1.0
|
|
C
|
B:LEU168
|
3.8
|
13.6
|
1.0
|
|
CA
|
B:ASP169
|
3.9
|
14.5
|
1.0
|
|
CB
|
B:ASP169
|
3.9
|
13.1
|
1.0
|
|
CE2
|
F:TRP206
|
4.2
|
13.3
|
1.0
|
|
CB
|
B:LEU168
|
4.2
|
15.8
|
1.0
|
|
C
|
B:ASP169
|
4.3
|
19.4
|
1.0
|
|
C
|
F:LYS259
|
4.4
|
12.1
|
1.0
|
|
CG
|
F:LYS259
|
4.4
|
12.1
|
1.0
|
|
CA
|
F:LYS260
|
4.5
|
12.6
|
1.0
|
|
CA
|
F:LYS259
|
4.5
|
13.4
|
1.0
|
|
CG
|
B:LEU168
|
4.6
|
15.2
|
1.0
|
|
CZ2
|
F:TRP206
|
4.7
|
13.5
|
1.0
|
|
O
|
B:GLU167
|
4.7
|
13.1
|
1.0
|
|
N
|
F:GLN261
|
4.8
|
11.2
|
1.0
|
|
N
|
B:LEU168
|
4.9
|
14.1
|
1.0
|
|
CD
|
F:LYS259
|
4.9
|
14.7
|
1.0
|
|
CD2
|
F:TYR203
|
5.0
|
11.8
|
1.0
|
|
Reference:
M.E.Thomas,
R.Grinshpon,
P.Swartz,
A.C.Clark.
Modifications to A Common Phosphorylation Network Provide Individualized Control in Caspases. J. Biol. Chem. V. 293 5447 2018.
ISSN: ESSN 1083-351X
PubMed: 29414778
DOI: 10.1074/JBC.RA117.000728
Page generated: Tue Oct 8 02:11:12 2024
|
