Calcium in PDB 2dg1: Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
Enzymatic activity of Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
All present enzymatic activity of Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+:
3.1.1.25;
Protein crystallography data
The structure of Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+, PDB code: 2dg1
was solved by
Y.Tanaka,
Y.Ohki,
K.Morikawa,
M.Yao,
N.Watanabe,
T.Ohta,
I.Tanaka,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
19.99 /
1.72
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
76.527,
181.978,
81.803,
90.00,
115.41,
90.00
|
|
R / Rfree (%)
|
16.9 /
19.7
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Calcium atom in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
(pdb code 2dg1). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the
Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+, PDB code: 2dg1:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 1 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca3001
b:11.3
occ:1.00
|
OD1
|
A:ASP236
|
2.3
|
12.0
|
1.0
|
|
O
|
A:HOH5221
|
2.3
|
12.1
|
1.0
|
|
OD1
|
A:ASN185
|
2.4
|
11.3
|
1.0
|
|
OG
|
A:SER237
|
2.4
|
12.3
|
1.0
|
|
O
|
A:HOH5220
|
2.5
|
9.9
|
1.0
|
|
OE2
|
A:GLU48
|
2.5
|
15.3
|
1.0
|
|
O
|
A:HOH5068
|
2.5
|
19.7
|
1.0
|
|
OD2
|
A:ASP138
|
2.6
|
13.6
|
1.0
|
|
CG
|
A:ASN185
|
3.4
|
9.0
|
1.0
|
|
CD
|
A:GLU48
|
3.6
|
14.7
|
1.0
|
|
CG
|
A:ASP236
|
3.6
|
11.8
|
1.0
|
|
CG
|
A:ASP138
|
3.6
|
12.3
|
1.0
|
|
CB
|
A:SER237
|
3.6
|
11.9
|
1.0
|
|
N
|
A:SER237
|
3.7
|
11.9
|
1.0
|
|
ND2
|
A:ASN185
|
3.9
|
10.1
|
1.0
|
|
OD1
|
A:ASP138
|
3.9
|
12.4
|
1.0
|
|
OE1
|
A:GLU48
|
4.0
|
14.3
|
1.0
|
|
CA
|
A:SER237
|
4.0
|
11.0
|
1.0
|
|
OD2
|
A:ASP236
|
4.3
|
14.0
|
1.0
|
|
C
|
A:ASP236
|
4.4
|
12.5
|
1.0
|
|
O
|
A:THR283
|
4.4
|
12.7
|
1.0
|
|
OD2
|
A:ASP139
|
4.5
|
11.3
|
1.0
|
|
O
|
A:ASN185
|
4.6
|
8.9
|
1.0
|
|
CB
|
A:ASP236
|
4.6
|
11.9
|
1.0
|
|
O
|
A:HOH5158
|
4.7
|
28.8
|
1.0
|
|
C
|
A:ASN185
|
4.7
|
9.4
|
1.0
|
|
O
|
A:ASP138
|
4.7
|
13.1
|
1.0
|
|
CA
|
A:ASP236
|
4.7
|
11.9
|
1.0
|
|
CB
|
A:ASN185
|
4.8
|
8.8
|
1.0
|
|
CG
|
A:GLU48
|
4.8
|
15.7
|
1.0
|
|
ND1
|
A:HIS284
|
4.8
|
11.7
|
1.0
|
|
CB
|
A:ASP138
|
4.9
|
12.3
|
1.0
|
|
O
|
A:ALA90
|
5.0
|
13.5
|
1.0
|
|
N
|
A:GLY186
|
5.0
|
10.2
|
1.0
|
|
Calcium binding site 2 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 2 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca3007
b:17.8
occ:0.70
|
O
|
A:SER110
|
2.3
|
16.8
|
1.0
|
|
O
|
A:HOH5293
|
2.4
|
23.8
|
1.0
|
|
O
|
A:ASP130
|
2.5
|
19.6
|
1.0
|
|
O
|
A:GLY112
|
2.5
|
13.4
|
1.0
|
|
O
|
A:THR133
|
2.5
|
18.5
|
1.0
|
|
O
|
A:TYR135
|
2.5
|
13.2
|
1.0
|
|
N
|
A:GLY112
|
3.3
|
13.5
|
1.0
|
|
N
|
A:TYR135
|
3.4
|
15.4
|
1.0
|
|
C
|
A:SER110
|
3.4
|
14.5
|
1.0
|
|
C
|
A:ASP130
|
3.5
|
21.9
|
1.0
|
|
C
|
A:THR133
|
3.5
|
19.8
|
1.0
|
|
C
|
A:GLY112
|
3.5
|
12.9
|
1.0
|
|
C
|
A:TYR135
|
3.5
|
14.8
|
1.0
|
|
C
|
A:THR111
|
3.7
|
15.1
|
1.0
|
|
C
|
A:ALA134
|
3.8
|
16.5
|
1.0
|
|
CA
|
A:THR111
|
3.8
|
14.8
|
1.0
|
|
CA
|
A:ASP130
|
3.9
|
20.8
|
1.0
|
|
CA
|
A:TYR135
|
3.9
|
14.6
|
1.0
|
|
CA
|
A:GLY112
|
4.0
|
12.5
|
1.0
|
|
O
|
A:HOH5070
|
4.0
|
22.4
|
1.0
|
|
N
|
A:THR111
|
4.1
|
15.2
|
1.0
|
|
CA
|
A:ALA134
|
4.2
|
17.8
|
1.0
|
|
N
|
A:ALA134
|
4.2
|
17.1
|
1.0
|
|
OG1
|
A:THR133
|
4.2
|
26.1
|
1.0
|
|
O
|
A:GLU129
|
4.3
|
20.1
|
1.0
|
|
CB
|
A:TYR135
|
4.4
|
14.4
|
1.0
|
|
O
|
A:ALA134
|
4.4
|
15.8
|
1.0
|
|
CA
|
A:THR133
|
4.4
|
22.3
|
1.0
|
|
O
|
A:THR111
|
4.6
|
14.2
|
1.0
|
|
N
|
A:GLY113
|
4.6
|
12.8
|
1.0
|
|
CA
|
A:SER110
|
4.6
|
15.9
|
1.0
|
|
N
|
A:THR133
|
4.6
|
23.7
|
1.0
|
|
N
|
A:LEU131
|
4.6
|
22.8
|
1.0
|
|
CB
|
A:ASP130
|
4.6
|
20.2
|
1.0
|
|
CB
|
A:THR133
|
4.7
|
23.4
|
1.0
|
|
N
|
A:CYS136
|
4.7
|
12.0
|
1.0
|
|
CA
|
A:GLY113
|
4.9
|
13.1
|
1.0
|
|
N
|
A:ASP130
|
5.0
|
19.7
|
1.0
|
|
Calcium binding site 3 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 3 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca3002
b:10.9
occ:1.00
|
OD1
|
B:ASN185
|
2.3
|
11.0
|
1.0
|
|
OD2
|
B:ASP236
|
2.4
|
12.6
|
1.0
|
|
O
|
B:HOH5221
|
2.4
|
9.2
|
1.0
|
|
OG
|
B:SER237
|
2.4
|
9.2
|
1.0
|
|
O
|
B:HOH5222
|
2.4
|
10.2
|
1.0
|
|
OD2
|
B:ASP138
|
2.5
|
10.6
|
1.0
|
|
OE2
|
B:GLU48
|
2.5
|
11.1
|
1.0
|
|
O
|
B:HOH5029
|
2.5
|
14.4
|
1.0
|
|
CG
|
B:ASN185
|
3.4
|
10.8
|
1.0
|
|
CG
|
B:ASP138
|
3.5
|
11.0
|
1.0
|
|
CG
|
B:ASP236
|
3.6
|
13.5
|
1.0
|
|
CD
|
B:GLU48
|
3.6
|
13.1
|
1.0
|
|
CB
|
B:SER237
|
3.6
|
9.3
|
1.0
|
|
N
|
B:SER237
|
3.7
|
11.0
|
1.0
|
|
OD1
|
B:ASP138
|
3.9
|
10.5
|
1.0
|
|
ND2
|
B:ASN185
|
3.9
|
10.0
|
1.0
|
|
CA
|
B:SER237
|
4.0
|
10.9
|
1.0
|
|
OE1
|
B:GLU48
|
4.0
|
10.8
|
1.0
|
|
OD1
|
B:ASP236
|
4.2
|
14.5
|
1.0
|
|
C
|
B:ASP236
|
4.4
|
10.3
|
1.0
|
|
O
|
B:THR283
|
4.5
|
9.8
|
1.0
|
|
OD2
|
B:ASP139
|
4.5
|
11.1
|
1.0
|
|
O
|
B:ASN185
|
4.6
|
8.6
|
1.0
|
|
C
|
B:ASN185
|
4.7
|
11.2
|
1.0
|
|
CB
|
B:ASP236
|
4.7
|
10.8
|
1.0
|
|
O
|
B:ASP138
|
4.7
|
10.9
|
1.0
|
|
CB
|
B:ASN185
|
4.7
|
10.4
|
1.0
|
|
CA
|
B:ASP236
|
4.8
|
10.8
|
1.0
|
|
CG
|
B:GLU48
|
4.9
|
13.4
|
1.0
|
|
CB
|
B:ASP138
|
4.9
|
11.8
|
1.0
|
|
O
|
B:ALA90
|
4.9
|
9.0
|
1.0
|
|
ND1
|
B:HIS284
|
4.9
|
9.5
|
1.0
|
|
CA
|
B:ASN185
|
5.0
|
10.1
|
1.0
|
|
Calcium binding site 4 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 4 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca3008
b:16.6
occ:0.70
|
O
|
B:SER110
|
2.3
|
14.2
|
1.0
|
|
O
|
B:GLY112
|
2.5
|
11.3
|
1.0
|
|
O
|
B:TYR135
|
2.5
|
12.3
|
1.0
|
|
O
|
B:ASP130
|
2.5
|
16.7
|
1.0
|
|
OG1
|
B:THR133
|
2.5
|
17.1
|
1.0
|
|
O
|
B:THR133
|
2.5
|
17.5
|
1.0
|
|
C
|
B:THR133
|
3.2
|
16.7
|
1.0
|
|
N
|
B:GLY112
|
3.3
|
12.7
|
1.0
|
|
N
|
B:TYR135
|
3.4
|
14.0
|
1.0
|
|
C
|
B:SER110
|
3.5
|
13.5
|
1.0
|
|
C
|
B:ASP130
|
3.5
|
18.4
|
1.0
|
|
C
|
B:GLY112
|
3.5
|
11.8
|
1.0
|
|
C
|
B:TYR135
|
3.5
|
13.1
|
1.0
|
|
CB
|
B:THR133
|
3.7
|
17.9
|
1.0
|
|
C
|
B:THR111
|
3.8
|
14.7
|
1.0
|
|
C
|
B:ALA134
|
3.8
|
14.8
|
1.0
|
|
CA
|
B:ASP130
|
3.8
|
17.7
|
1.0
|
|
CA
|
B:TYR135
|
3.8
|
12.2
|
1.0
|
|
CA
|
B:THR111
|
3.8
|
13.6
|
1.0
|
|
CA
|
B:THR133
|
3.9
|
18.3
|
1.0
|
|
N
|
B:ALA134
|
3.9
|
16.1
|
1.0
|
|
CA
|
B:GLY112
|
4.0
|
11.6
|
1.0
|
|
O
|
B:GLU129
|
4.0
|
17.9
|
1.0
|
|
N
|
B:THR111
|
4.1
|
14.1
|
1.0
|
|
CA
|
B:ALA134
|
4.2
|
15.4
|
1.0
|
|
N
|
B:THR133
|
4.2
|
18.4
|
1.0
|
|
O
|
B:HOH5043
|
4.3
|
15.5
|
1.0
|
|
CB
|
B:TYR135
|
4.4
|
13.8
|
1.0
|
|
O
|
B:ALA134
|
4.4
|
15.1
|
1.0
|
|
CA
|
B:SER110
|
4.6
|
13.9
|
1.0
|
|
O
|
B:THR111
|
4.6
|
12.7
|
1.0
|
|
N
|
B:GLY113
|
4.6
|
11.1
|
1.0
|
|
N
|
B:LEU131
|
4.7
|
19.1
|
1.0
|
|
CB
|
B:ASP130
|
4.7
|
18.2
|
1.0
|
|
N
|
B:CYS136
|
4.7
|
12.6
|
1.0
|
|
N
|
B:ASP130
|
4.8
|
17.5
|
1.0
|
|
C
|
B:GLU129
|
4.8
|
18.2
|
1.0
|
|
CG2
|
B:THR133
|
4.9
|
16.2
|
1.0
|
|
CA
|
B:GLY113
|
5.0
|
10.8
|
1.0
|
|
Calcium binding site 5 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 5 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca3003
b:12.1
occ:1.00
|
OD1
|
C:ASP236
|
2.4
|
13.5
|
1.0
|
|
OD1
|
C:ASN185
|
2.4
|
11.1
|
1.0
|
|
OG
|
C:SER237
|
2.4
|
10.9
|
1.0
|
|
O
|
C:HOH5213
|
2.4
|
14.6
|
1.0
|
|
O
|
C:HOH5212
|
2.5
|
10.6
|
1.0
|
|
OE2
|
C:GLU48
|
2.5
|
15.0
|
1.0
|
|
O
|
C:HOH5049
|
2.5
|
19.1
|
1.0
|
|
OD2
|
C:ASP138
|
2.5
|
13.4
|
1.0
|
|
CG
|
C:ASN185
|
3.5
|
10.9
|
1.0
|
|
CG
|
C:ASP138
|
3.5
|
15.6
|
1.0
|
|
CD
|
C:GLU48
|
3.6
|
14.0
|
1.0
|
|
CG
|
C:ASP236
|
3.6
|
15.6
|
1.0
|
|
CB
|
C:SER237
|
3.7
|
11.4
|
1.0
|
|
N
|
C:SER237
|
3.7
|
13.0
|
1.0
|
|
OD1
|
C:ASP138
|
3.9
|
14.0
|
1.0
|
|
ND2
|
C:ASN185
|
3.9
|
9.9
|
1.0
|
|
OE1
|
C:GLU48
|
4.0
|
12.5
|
1.0
|
|
CA
|
C:SER237
|
4.0
|
11.6
|
1.0
|
|
O
|
C:HOH5178
|
4.2
|
27.2
|
1.0
|
|
OD2
|
C:ASP236
|
4.3
|
16.4
|
1.0
|
|
O
|
C:HOH5229
|
4.4
|
31.0
|
1.0
|
|
C
|
C:ASP236
|
4.4
|
12.6
|
1.0
|
|
O
|
C:THR283
|
4.5
|
13.0
|
1.0
|
|
OD2
|
C:ASP139
|
4.5
|
11.3
|
1.0
|
|
O
|
C:ASN185
|
4.6
|
11.0
|
1.0
|
|
CB
|
C:ASP236
|
4.7
|
13.1
|
1.0
|
|
C
|
C:ASN185
|
4.7
|
10.2
|
1.0
|
|
O
|
C:ASP138
|
4.7
|
12.5
|
1.0
|
|
CB
|
C:ASN185
|
4.8
|
10.3
|
1.0
|
|
CA
|
C:ASP236
|
4.8
|
12.7
|
1.0
|
|
CG
|
C:GLU48
|
4.8
|
15.4
|
1.0
|
|
CB
|
C:ASP138
|
4.9
|
11.5
|
1.0
|
|
ND1
|
C:HIS284
|
4.9
|
12.4
|
1.0
|
|
O
|
C:ALA90
|
5.0
|
14.4
|
1.0
|
|
Calcium binding site 6 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 6 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca3009
b:19.6
occ:0.70
|
O
|
C:SER110
|
2.2
|
17.2
|
1.0
|
|
O
|
C:TYR135
|
2.4
|
15.8
|
1.0
|
|
OG1
|
C:THR133
|
2.5
|
28.3
|
1.0
|
|
O
|
C:THR133
|
2.5
|
24.7
|
1.0
|
|
O
|
C:GLY112
|
2.5
|
16.2
|
1.0
|
|
O
|
C:ASP130
|
2.6
|
23.2
|
1.0
|
|
C
|
C:THR133
|
3.2
|
23.5
|
1.0
|
|
N
|
C:GLY112
|
3.3
|
16.6
|
1.0
|
|
C
|
C:SER110
|
3.4
|
17.6
|
1.0
|
|
C
|
C:TYR135
|
3.5
|
16.0
|
1.0
|
|
N
|
C:TYR135
|
3.5
|
15.7
|
1.0
|
|
C
|
C:GLY112
|
3.5
|
16.4
|
1.0
|
|
C
|
C:ASP130
|
3.6
|
26.0
|
1.0
|
|
CB
|
C:THR133
|
3.6
|
27.8
|
1.0
|
|
C
|
C:THR111
|
3.7
|
17.4
|
1.0
|
|
CA
|
C:THR111
|
3.8
|
17.3
|
1.0
|
|
CA
|
C:THR133
|
3.8
|
26.1
|
1.0
|
|
C
|
C:ALA134
|
3.9
|
16.2
|
1.0
|
|
CA
|
C:ASP130
|
3.9
|
24.8
|
1.0
|
|
CA
|
C:TYR135
|
3.9
|
16.6
|
1.0
|
|
CA
|
C:GLY112
|
4.0
|
15.8
|
1.0
|
|
N
|
C:ALA134
|
4.0
|
19.1
|
1.0
|
|
N
|
C:THR111
|
4.0
|
17.7
|
1.0
|
|
O
|
C:GLU129
|
4.1
|
25.7
|
1.0
|
|
N
|
C:THR133
|
4.1
|
28.9
|
1.0
|
|
O
|
C:HOH5146
|
4.2
|
26.6
|
1.0
|
|
CA
|
C:ALA134
|
4.3
|
18.0
|
1.0
|
|
O
|
C:ALA134
|
4.4
|
15.3
|
1.0
|
|
CA
|
C:SER110
|
4.5
|
19.1
|
1.0
|
|
CB
|
C:TYR135
|
4.5
|
15.9
|
1.0
|
|
O
|
C:THR111
|
4.6
|
17.1
|
1.0
|
|
N
|
C:GLY113
|
4.7
|
15.7
|
1.0
|
|
N
|
C:CYS136
|
4.7
|
15.8
|
1.0
|
|
N
|
C:LEU131
|
4.8
|
27.3
|
1.0
|
|
CG2
|
C:THR133
|
4.8
|
28.4
|
1.0
|
|
CB
|
C:ASP130
|
4.8
|
25.4
|
1.0
|
|
N
|
C:ASP130
|
4.9
|
24.7
|
1.0
|
|
C
|
C:GLU129
|
4.9
|
25.0
|
1.0
|
|
Calcium binding site 7 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 7 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca3004
b:11.3
occ:1.00
|
OD1
|
D:ASP236
|
2.4
|
10.9
|
1.0
|
|
O
|
D:HOH5231
|
2.4
|
11.9
|
1.0
|
|
OD1
|
D:ASN185
|
2.4
|
10.9
|
1.0
|
|
O
|
D:HOH5230
|
2.4
|
10.3
|
1.0
|
|
OG
|
D:SER237
|
2.4
|
9.8
|
1.0
|
|
OE2
|
D:GLU48
|
2.5
|
13.6
|
1.0
|
|
OD2
|
D:ASP138
|
2.5
|
12.2
|
1.0
|
|
O
|
D:HOH5029
|
2.6
|
17.3
|
1.0
|
|
CG
|
D:ASN185
|
3.5
|
9.4
|
1.0
|
|
CG
|
D:ASP138
|
3.5
|
12.7
|
1.0
|
|
CD
|
D:GLU48
|
3.5
|
12.2
|
1.0
|
|
CG
|
D:ASP236
|
3.6
|
11.3
|
1.0
|
|
CB
|
D:SER237
|
3.6
|
8.5
|
1.0
|
|
N
|
D:SER237
|
3.7
|
10.2
|
1.0
|
|
OD1
|
D:ASP138
|
3.9
|
13.0
|
1.0
|
|
ND2
|
D:ASN185
|
3.9
|
8.6
|
1.0
|
|
OE1
|
D:GLU48
|
4.0
|
11.7
|
1.0
|
|
CA
|
D:SER237
|
4.0
|
9.6
|
1.0
|
|
OD2
|
D:ASP236
|
4.3
|
13.8
|
1.0
|
|
O
|
D:HOH5154
|
4.3
|
26.9
|
1.0
|
|
C
|
D:ASP236
|
4.4
|
10.6
|
1.0
|
|
O
|
D:THR283
|
4.5
|
10.2
|
1.0
|
|
OD2
|
D:ASP139
|
4.5
|
14.2
|
1.0
|
|
O
|
D:ASN185
|
4.5
|
10.5
|
1.0
|
|
CB
|
D:ASP236
|
4.6
|
11.5
|
1.0
|
|
C
|
D:ASN185
|
4.7
|
11.7
|
1.0
|
|
O
|
D:ASP138
|
4.7
|
11.6
|
1.0
|
|
CA
|
D:ASP236
|
4.8
|
10.1
|
1.0
|
|
CB
|
D:ASN185
|
4.8
|
9.3
|
1.0
|
|
CG
|
D:GLU48
|
4.8
|
11.8
|
1.0
|
|
CB
|
D:ASP138
|
4.9
|
12.6
|
1.0
|
|
ND1
|
D:HIS284
|
4.9
|
11.9
|
1.0
|
|
O
|
D:ALA90
|
4.9
|
12.6
|
1.0
|
|
CB
|
D:ASP139
|
5.0
|
10.8
|
1.0
|
|
Calcium binding site 8 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 8 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca3010
b:17.6
occ:0.70
|
O
|
D:SER110
|
2.3
|
15.1
|
1.0
|
|
O
|
D:GLY112
|
2.5
|
13.3
|
1.0
|
|
O
|
D:TYR135
|
2.5
|
13.4
|
1.0
|
|
OG1
|
D:THR133
|
2.5
|
14.3
|
1.0
|
|
O
|
D:ASP130
|
2.5
|
13.1
|
1.0
|
|
O
|
D:THR133
|
2.6
|
14.6
|
1.0
|
|
C
|
D:THR133
|
3.2
|
14.8
|
1.0
|
|
N
|
D:GLY112
|
3.3
|
12.9
|
1.0
|
|
C
|
D:SER110
|
3.4
|
12.9
|
1.0
|
|
N
|
D:TYR135
|
3.5
|
14.0
|
1.0
|
|
C
|
D:TYR135
|
3.5
|
13.2
|
1.0
|
|
C
|
D:GLY112
|
3.5
|
13.9
|
1.0
|
|
C
|
D:ASP130
|
3.5
|
14.6
|
1.0
|
|
CB
|
D:THR133
|
3.7
|
13.4
|
1.0
|
|
C
|
D:THR111
|
3.7
|
13.8
|
1.0
|
|
CA
|
D:ASP130
|
3.8
|
14.0
|
1.0
|
|
C
|
D:ALA134
|
3.8
|
14.0
|
1.0
|
|
CA
|
D:THR111
|
3.8
|
13.5
|
1.0
|
|
CA
|
D:TYR135
|
3.9
|
12.7
|
1.0
|
|
CA
|
D:THR133
|
3.9
|
13.7
|
1.0
|
|
CA
|
D:GLY112
|
3.9
|
12.9
|
1.0
|
|
N
|
D:ALA134
|
4.0
|
14.4
|
1.0
|
|
O
|
D:GLU129
|
4.0
|
15.4
|
1.0
|
|
N
|
D:THR111
|
4.1
|
14.0
|
1.0
|
|
O
|
D:HOH5055
|
4.1
|
18.0
|
1.0
|
|
N
|
D:THR133
|
4.2
|
14.8
|
1.0
|
|
CA
|
D:ALA134
|
4.3
|
14.4
|
1.0
|
|
O
|
D:ALA134
|
4.4
|
13.8
|
1.0
|
|
CB
|
D:TYR135
|
4.4
|
11.2
|
1.0
|
|
CA
|
D:SER110
|
4.5
|
14.5
|
1.0
|
|
O
|
D:THR111
|
4.6
|
13.3
|
1.0
|
|
N
|
D:GLY113
|
4.6
|
13.2
|
1.0
|
|
CB
|
D:ASP130
|
4.7
|
14.5
|
1.0
|
|
N
|
D:CYS136
|
4.7
|
11.6
|
1.0
|
|
N
|
D:LEU131
|
4.7
|
14.2
|
1.0
|
|
N
|
D:ASP130
|
4.8
|
14.6
|
1.0
|
|
C
|
D:GLU129
|
4.8
|
15.9
|
1.0
|
|
CG2
|
D:THR133
|
4.9
|
13.6
|
1.0
|
|
Calcium binding site 9 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 9 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 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 DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca3005
b:11.3
occ:1.00
|
O
|
E:HOH5235
|
2.4
|
10.8
|
1.0
|
|
OD1
|
E:ASN185
|
2.4
|
11.6
|
1.0
|
|
O
|
E:HOH5236
|
2.4
|
12.5
|
1.0
|
|
OD1
|
E:ASP236
|
2.4
|
13.4
|
1.0
|
|
OG
|
E:SER237
|
2.4
|
12.6
|
1.0
|
|
OE2
|
E:GLU48
|
2.5
|
12.9
|
1.0
|
|
OD2
|
E:ASP138
|
2.5
|
13.5
|
1.0
|
|
O
|
E:HOH5024
|
2.7
|
14.9
|
1.0
|
|
CG
|
E:ASN185
|
3.4
|
10.7
|
1.0
|
|
CG
|
E:ASP138
|
3.5
|
13.9
|
1.0
|
|
CD
|
E:GLU48
|
3.6
|
13.5
|
1.0
|
|
CB
|
E:SER237
|
3.6
|
11.8
|
1.0
|
|
CG
|
E:ASP236
|
3.6
|
12.6
|
1.0
|
|
N
|
E:SER237
|
3.7
|
10.1
|
1.0
|
|
OD1
|
E:ASP138
|
3.9
|
13.9
|
1.0
|
|
ND2
|
E:ASN185
|
3.9
|
10.6
|
1.0
|
|
CA
|
E:SER237
|
3.9
|
10.7
|
1.0
|
|
OE1
|
E:GLU48
|
4.0
|
13.9
|
1.0
|
|
OD2
|
E:ASP236
|
4.3
|
14.3
|
1.0
|
|
C
|
E:ASP236
|
4.4
|
11.1
|
1.0
|
|
O
|
E:THR283
|
4.5
|
11.1
|
1.0
|
|
OD2
|
E:ASP139
|
4.5
|
10.8
|
1.0
|
|
O
|
E:ASN185
|
4.6
|
11.4
|
1.0
|
|
C
|
E:ASN185
|
4.7
|
11.7
|
1.0
|
|
CB
|
E:ASP236
|
4.7
|
10.8
|
1.0
|
|
O
|
E:ASP138
|
4.7
|
11.5
|
1.0
|
|
CB
|
E:ASN185
|
4.7
|
10.3
|
1.0
|
|
CA
|
E:ASP236
|
4.8
|
10.5
|
1.0
|
|
CG
|
E:GLU48
|
4.8
|
13.6
|
1.0
|
|
CB
|
E:ASP138
|
4.9
|
11.8
|
1.0
|
|
ND1
|
E:HIS284
|
4.9
|
10.5
|
1.0
|
|
N
|
E:GLY186
|
5.0
|
11.7
|
1.0
|
|
O
|
E:ALA90
|
5.0
|
13.2
|
1.0
|
|
Calcium binding site 10 out
of 12 in 2dg1
Go back to
Calcium Binding Sites List in 2dg1
Calcium binding site 10 out
of 12 in the Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+
 Mono view
 Stereo pair view
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A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Crystal Structure of DRP35, A 35KDA Drug Responsive Protein From Staphylococcus Aureus, Complexed with CA2+ within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca3011
b:19.3
occ:0.70
|
O
|
E:SER110
|
2.3
|
17.0
|
1.0
|
|
O
|
E:THR133
|
2.4
|
21.2
|
1.0
|
|
O
|
E:ASP130
|
2.4
|
20.4
|
1.0
|
|
O
|
E:GLY112
|
2.5
|
14.3
|
1.0
|
|
O
|
E:TYR135
|
2.6
|
13.8
|
1.0
|
|
OG1
|
E:THR133
|
2.6
|
25.7
|
1.0
|
|
C
|
E:THR133
|
3.2
|
20.2
|
1.0
|
|
N
|
E:GLY112
|
3.3
|
14.8
|
1.0
|
|
C
|
E:ASP130
|
3.4
|
21.8
|
1.0
|
|
C
|
E:SER110
|
3.5
|
15.8
|
1.0
|
|
C
|
E:GLY112
|
3.5
|
13.0
|
1.0
|
|
N
|
E:TYR135
|
3.5
|
14.2
|
1.0
|
|
C
|
E:TYR135
|
3.6
|
14.7
|
1.0
|
|
C
|
E:THR111
|
3.7
|
15.5
|
1.0
|
|
CB
|
E:THR133
|
3.7
|
23.3
|
1.0
|
|
CA
|
E:ASP130
|
3.8
|
20.3
|
1.0
|
|
C
|
E:ALA134
|
3.8
|
15.1
|
1.0
|
|
CA
|
E:THR111
|
3.9
|
16.6
|
1.0
|
|
CA
|
E:THR133
|
3.9
|
24.1
|
1.0
|
|
CA
|
E:TYR135
|
3.9
|
13.8
|
1.0
|
|
CA
|
E:GLY112
|
3.9
|
14.2
|
1.0
|
|
O
|
E:HOH5120
|
4.0
|
21.6
|
1.0
|
|
N
|
E:ALA134
|
4.0
|
19.0
|
1.0
|
|
N
|
E:THR111
|
4.1
|
15.9
|
1.0
|
|
O
|
E:GLU129
|
4.2
|
19.9
|
1.0
|
|
CA
|
E:ALA134
|
4.2
|
16.7
|
1.0
|
|
N
|
E:THR133
|
4.2
|
25.6
|
1.0
|
|
CB
|
E:TYR135
|
4.4
|
14.1
|
1.0
|
|
O
|
E:ALA134
|
4.4
|
13.9
|
1.0
|
|
CA
|
E:SER110
|
4.6
|
16.5
|
1.0
|
|
O
|
E:THR111
|
4.6
|
16.7
|
1.0
|
|
N
|
E:GLY113
|
4.6
|
12.2
|
1.0
|
|
CB
|
E:ASP130
|
4.6
|
20.5
|
1.0
|
|
N
|
E:LEU131
|
4.7
|
23.9
|
1.0
|
|
N
|
E:CYS136
|
4.8
|
13.4
|
1.0
|
|
N
|
E:ASP130
|
4.9
|
18.7
|
1.0
|
|
CG2
|
E:THR133
|
4.9
|
25.0
|
1.0
|
|
CA
|
E:GLY113
|
5.0
|
12.7
|
1.0
|
|
Reference:
Y.Tanaka,
K.Morikawa,
Y.Ohki,
M.Yao,
K.Tsumoto,
N.Watanabe,
T.Ohta,
I.Tanaka.
Structural and Mutational Analyses of DRP35 From Staphylococcus Aureus: A Possible Mechanism For Its Lactonase Activity J.Biol.Chem. V. 282 5770 2007.
ISSN: ISSN 0021-9258
PubMed: 17166853
DOI: 10.1074/JBC.M607340200
Page generated: Fri Jul 12 09:46:24 2024
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