Calcium in PDB 2ixt: Sphericase
Protein crystallography data
The structure of Sphericase, PDB code: 2ixt
was solved by
O.Almog,
A.Gonzalez,
N.Godin,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
84.52 /
0.80
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
46.088,
62.668,
84.874,
90.00,
95.47,
90.00
|
R / Rfree (%)
|
13.7 /
15.4
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Calcium atom in the Sphericase
(pdb code 2ixt). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the
Sphericase, PDB code: 2ixt:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 1 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1310
b:3.4
occ:1.00
|
OD1
|
A:ASP287
|
2.3
|
4.9
|
1.0
|
O
|
A:GLY297
|
2.3
|
4.7
|
1.0
|
O
|
A:ALA295
|
2.3
|
4.1
|
1.0
|
OD1
|
A:ASP299
|
2.3
|
4.4
|
1.0
|
O
|
A:ILE288
|
2.3
|
4.0
|
1.0
|
O
|
A:HOH2492
|
2.4
|
4.4
|
1.0
|
C
|
A:GLY297
|
3.4
|
4.6
|
1.0
|
CG
|
A:ASP287
|
3.4
|
4.4
|
1.0
|
C
|
A:ILE288
|
3.5
|
3.9
|
1.0
|
CG
|
A:ASP299
|
3.5
|
3.7
|
1.0
|
C
|
A:ALA295
|
3.5
|
4.1
|
1.0
|
N
|
A:GLY297
|
3.7
|
4.9
|
1.0
|
OG
|
A:SER302
|
3.8
|
4.5
|
1.0
|
N
|
A:ILE288
|
3.8
|
3.9
|
1.0
|
N
|
A:ALA295
|
4.0
|
4.0
|
1.0
|
OD2
|
A:ASP287
|
4.0
|
6.8
|
1.0
|
C
|
A:ILE296
|
4.1
|
4.7
|
1.0
|
CA
|
A:GLY297
|
4.1
|
5.1
|
1.0
|
O
|
A:HOH2493
|
4.2
|
68.3
|
1.0
|
CA
|
A:ILE288
|
4.2
|
3.8
|
1.0
|
CB
|
A:ASP299
|
4.3
|
4.1
|
1.0
|
CA
|
A:ALA295
|
4.4
|
4.3
|
1.0
|
OD2
|
A:ASP299
|
4.4
|
4.2
|
1.0
|
N
|
A:ILE296
|
4.4
|
4.6
|
1.0
|
CA
|
A:ILE296
|
4.5
|
5.1
|
1.0
|
N
|
A:LYS289
|
4.5
|
3.9
|
1.0
|
C
|
A:ASP287
|
4.5
|
5.0
|
1.0
|
O
|
A:GLY303
|
4.5
|
3.6
|
1.0
|
N
|
A:ASP298
|
4.5
|
4.8
|
1.0
|
CG
|
A:LYS289
|
4.5
|
5.8
|
0.5
|
N
|
A:ASP299
|
4.5
|
4.0
|
1.0
|
CB
|
A:ASP287
|
4.6
|
4.9
|
1.0
|
CA
|
A:ASP287
|
4.7
|
4.2
|
1.0
|
CA
|
A:LYS289
|
4.7
|
4.4
|
0.5
|
O
|
A:ILE296
|
4.7
|
6.3
|
1.0
|
CA
|
A:LYS289
|
4.7
|
4.0
|
0.5
|
CG
|
A:LYS289
|
4.8
|
5.1
|
0.5
|
CB
|
A:ILE288
|
4.8
|
3.9
|
1.0
|
C
|
A:ASP298
|
4.8
|
4.5
|
1.0
|
CA
|
A:ASP298
|
4.8
|
4.6
|
1.0
|
|
Calcium binding site 2 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 2 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1311
b:4.0
occ:1.00
|
O
|
A:THR214
|
2.3
|
5.2
|
1.0
|
O
|
A:VAL219
|
2.3
|
4.9
|
1.0
|
OE1
|
A:GLN221
|
2.3
|
5.0
|
1.0
|
O
|
A:HOH2487
|
2.3
|
5.1
|
1.0
|
OD1
|
A:ASP224
|
2.3
|
4.4
|
1.0
|
OD2
|
A:ASP217
|
2.4
|
6.1
|
1.0
|
CG
|
A:ASP217
|
3.3
|
6.0
|
1.0
|
CG
|
A:ASP224
|
3.3
|
4.1
|
1.0
|
CD
|
A:GLN221
|
3.3
|
5.1
|
1.0
|
C
|
A:THR214
|
3.5
|
5.1
|
1.0
|
C
|
A:VAL219
|
3.5
|
4.7
|
1.0
|
OD1
|
A:ASP217
|
3.5
|
8.0
|
1.0
|
OD2
|
A:ASP224
|
3.8
|
6.1
|
1.0
|
NE2
|
A:GLN221
|
3.8
|
6.8
|
1.0
|
N
|
A:GLN221
|
4.1
|
4.2
|
1.0
|
O
|
A:HOH2386
|
4.1
|
17.2
|
1.0
|
CB
|
A:THR214
|
4.2
|
5.7
|
1.0
|
N
|
A:VAL219
|
4.2
|
5.3
|
1.0
|
CA
|
A:THR214
|
4.3
|
5.0
|
1.0
|
CA
|
A:ILE220
|
4.3
|
4.7
|
1.0
|
N
|
A:ILE220
|
4.4
|
5.0
|
1.0
|
N
|
A:ALA215
|
4.4
|
5.8
|
0.3
|
N
|
A:ALA215
|
4.4
|
5.5
|
0.7
|
CA
|
A:ALA215
|
4.4
|
5.9
|
0.3
|
CA
|
A:VAL219
|
4.4
|
5.5
|
1.0
|
CA
|
A:ALA215
|
4.4
|
5.8
|
0.7
|
OD1
|
A:ASP298
|
4.4
|
4.8
|
1.0
|
CB
|
A:ASP224
|
4.5
|
3.7
|
1.0
|
CG
|
A:GLN221
|
4.6
|
6.0
|
1.0
|
C
|
A:ILE220
|
4.6
|
4.9
|
1.0
|
CB
|
A:ASP217
|
4.7
|
6.9
|
1.0
|
CB
|
A:GLN221
|
4.7
|
5.5
|
1.0
|
OG1
|
A:THR214
|
4.7
|
6.5
|
1.0
|
N
|
A:ASP217
|
4.8
|
6.1
|
1.0
|
O
|
A:HOH2488
|
4.8
|
5.0
|
1.0
|
C
|
A:ALA215
|
4.8
|
5.6
|
0.7
|
CB
|
A:VAL219
|
4.8
|
6.6
|
1.0
|
O
|
A:HOH2382
|
4.9
|
38.5
|
1.0
|
N
|
A:GLY216
|
4.9
|
5.9
|
1.0
|
CA
|
A:GLN221
|
5.0
|
5.0
|
1.0
|
|
Calcium binding site 3 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 3 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1312
b:4.3
occ:0.70
|
CA
|
A:CA1312
|
0.0
|
4.3
|
0.7
|
CA
|
A:CA1312
|
0.7
|
7.6
|
0.3
|
O
|
A:HOH2123
|
1.7
|
8.2
|
0.3
|
O
|
A:HOH2075
|
2.3
|
5.8
|
1.0
|
OD1
|
A:ASN29
|
2.3
|
5.6
|
1.0
|
OD2
|
A:ASP98
|
2.3
|
4.9
|
0.7
|
O
|
A:HOH2122
|
2.4
|
9.2
|
0.5
|
OE1
|
A:GLU49
|
2.4
|
6.1
|
0.7
|
O
|
A:HOH2264
|
2.4
|
6.4
|
0.7
|
OE2
|
A:GLU49
|
2.6
|
7.2
|
0.3
|
OE2
|
A:GLU49
|
2.7
|
10.4
|
0.7
|
OD2
|
A:ASP98
|
2.7
|
14.6
|
0.3
|
OE1
|
A:GLU49
|
2.8
|
8.0
|
0.3
|
O
|
A:HOH2214
|
2.8
|
14.3
|
0.5
|
CD
|
A:GLU49
|
2.9
|
6.4
|
0.7
|
CD
|
A:GLU49
|
3.1
|
6.1
|
0.3
|
CG
|
A:ASP98
|
3.1
|
11.8
|
0.3
|
OD1
|
A:ASP98
|
3.1
|
15.5
|
0.3
|
CG
|
A:ASP98
|
3.4
|
4.2
|
0.7
|
CG
|
A:ASN29
|
3.5
|
4.5
|
1.0
|
CB
|
A:ASP98
|
3.8
|
3.2
|
0.7
|
O
|
A:HOH2215
|
4.0
|
11.8
|
0.5
|
ND2
|
A:ASN29
|
4.0
|
5.5
|
1.0
|
CB
|
A:ASP98
|
4.1
|
7.4
|
0.3
|
O
|
A:HOH2030
|
4.4
|
11.5
|
1.0
|
OG1
|
A:THR132
|
4.4
|
4.5
|
0.6
|
NE1
|
A:TRP100
|
4.4
|
4.3
|
1.0
|
CG
|
A:GLU49
|
4.4
|
5.5
|
0.7
|
OD1
|
A:ASP98
|
4.4
|
5.2
|
0.7
|
CG
|
A:GLU49
|
4.5
|
5.3
|
0.3
|
O
|
A:HOH2022
|
4.6
|
11.1
|
1.0
|
O
|
A:HOH2119
|
4.6
|
5.6
|
0.5
|
CG2
|
A:THR132
|
4.7
|
8.1
|
0.4
|
O
|
A:GLY27
|
4.7
|
5.7
|
1.0
|
CB
|
A:ASN29
|
4.7
|
4.2
|
1.0
|
CZ2
|
A:TRP100
|
4.8
|
4.8
|
1.0
|
CB
|
A:THR132
|
4.8
|
4.3
|
0.6
|
O
|
A:HOH2124
|
4.9
|
27.5
|
1.0
|
O
|
A:HOH2125
|
4.9
|
15.9
|
1.0
|
OG1
|
A:THR132
|
4.9
|
7.6
|
0.4
|
CG2
|
A:THR132
|
5.0
|
5.3
|
0.6
|
CE2
|
A:TRP100
|
5.0
|
4.2
|
1.0
|
CB
|
A:THR132
|
5.0
|
6.6
|
0.4
|
|
Calcium binding site 4 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 4 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1312
b:7.6
occ:0.30
|
CA
|
A:CA1312
|
0.0
|
7.6
|
0.3
|
CA
|
A:CA1312
|
0.7
|
4.3
|
0.7
|
OD2
|
A:ASP98
|
1.7
|
4.9
|
0.7
|
OD2
|
A:ASP98
|
2.2
|
14.6
|
0.3
|
O
|
A:HOH2123
|
2.3
|
8.2
|
0.3
|
O
|
A:HOH2122
|
2.3
|
9.2
|
0.5
|
OE1
|
A:GLU49
|
2.4
|
6.1
|
0.7
|
OE1
|
A:GLU49
|
2.5
|
8.0
|
0.3
|
O
|
A:HOH2075
|
2.5
|
5.8
|
1.0
|
O
|
A:HOH2214
|
2.5
|
14.3
|
0.5
|
OD1
|
A:ASN29
|
2.6
|
5.6
|
1.0
|
CG
|
A:ASP98
|
2.6
|
11.8
|
0.3
|
OE2
|
A:GLU49
|
2.6
|
10.4
|
0.7
|
CG
|
A:ASP98
|
2.7
|
4.2
|
0.7
|
OE2
|
A:GLU49
|
2.9
|
7.2
|
0.3
|
CD
|
A:GLU49
|
2.9
|
6.4
|
0.7
|
OD1
|
A:ASP98
|
2.9
|
15.5
|
0.3
|
CD
|
A:GLU49
|
3.0
|
6.1
|
0.3
|
O
|
A:HOH2264
|
3.1
|
6.4
|
0.7
|
CB
|
A:ASP98
|
3.3
|
3.2
|
0.7
|
O
|
A:HOH2215
|
3.5
|
11.8
|
0.5
|
CB
|
A:ASP98
|
3.6
|
7.4
|
0.3
|
OD1
|
A:ASP98
|
3.8
|
5.2
|
0.7
|
CG
|
A:ASN29
|
3.8
|
4.5
|
1.0
|
O
|
A:HOH2124
|
4.3
|
27.5
|
1.0
|
CG
|
A:GLU49
|
4.4
|
5.5
|
0.7
|
ND2
|
A:ASN29
|
4.5
|
5.5
|
1.0
|
CG
|
A:GLU49
|
4.5
|
5.3
|
0.3
|
O
|
A:GLY27
|
4.6
|
5.7
|
1.0
|
O
|
A:HOH2022
|
4.6
|
11.1
|
1.0
|
NE1
|
A:TRP100
|
4.7
|
4.3
|
1.0
|
O
|
A:HOH2125
|
4.8
|
15.9
|
1.0
|
CA
|
A:ASP98
|
4.8
|
3.4
|
0.7
|
O
|
A:HOH2030
|
4.8
|
11.5
|
1.0
|
CB
|
A:ASN29
|
4.9
|
4.2
|
1.0
|
C
|
A:GLY27
|
4.9
|
5.0
|
1.0
|
CB
|
A:GLU49
|
4.9
|
4.5
|
0.7
|
OG1
|
A:THR132
|
5.0
|
4.5
|
0.6
|
CA
|
A:ASP98
|
5.0
|
5.7
|
0.3
|
|
Calcium binding site 5 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 5 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1313
b:5.4
occ:0.70
|
O
|
A:HOH2243
|
1.4
|
9.1
|
0.3
|
O
|
A:HOH2140
|
2.3
|
6.8
|
1.0
|
O
|
A:HOH2237
|
2.3
|
7.8
|
1.0
|
O
|
A:HOH2136
|
2.4
|
9.2
|
1.0
|
O
|
A:HOH2141
|
2.4
|
11.2
|
1.0
|
OD1
|
A:ASP115
|
2.4
|
5.6
|
1.0
|
O
|
A:HOH2238
|
2.4
|
6.6
|
0.7
|
OD2
|
A:ASP115
|
2.6
|
5.6
|
1.0
|
CG
|
A:ASP115
|
2.8
|
4.8
|
1.0
|
OD1
|
A:ASP114
|
4.2
|
6.1
|
1.0
|
O
|
A:PHE54
|
4.3
|
4.2
|
1.0
|
CD1
|
A:TYR112
|
4.3
|
7.2
|
1.0
|
CB
|
A:ASP115
|
4.4
|
4.3
|
1.0
|
OD2
|
A:ASP114
|
4.4
|
7.9
|
1.0
|
O
|
A:THR55
|
4.4
|
7.0
|
1.0
|
O
|
A:HOH2244
|
4.4
|
10.6
|
1.0
|
O
|
A:HOH2041
|
4.5
|
12.4
|
1.0
|
O
|
A:GLY56
|
4.5
|
6.5
|
1.0
|
O
|
A:HOH2135
|
4.6
|
43.6
|
1.0
|
C
|
A:THR55
|
4.6
|
5.1
|
1.0
|
CG
|
A:ASP114
|
4.6
|
6.4
|
1.0
|
O
|
A:HOH2040
|
4.7
|
20.2
|
1.0
|
CA
|
A:THR55
|
4.7
|
4.4
|
1.0
|
CB
|
A:TYR112
|
4.9
|
5.7
|
1.0
|
CG
|
A:TYR112
|
4.9
|
6.5
|
1.0
|
|
Calcium binding site 6 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 6 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1314
b:4.1
occ:0.60
|
O
|
A:ALA186
|
2.3
|
4.4
|
1.0
|
O
|
A:GLY181
|
2.3
|
3.7
|
1.0
|
O
|
A:LEU183
|
2.3
|
4.2
|
1.0
|
O
|
A:HOH2401
|
2.3
|
4.7
|
1.0
|
O
|
A:HOH2405
|
2.4
|
3.7
|
1.0
|
C
|
A:LEU183
|
3.4
|
3.7
|
1.0
|
C
|
A:ALA186
|
3.4
|
3.6
|
1.0
|
C
|
A:GLY181
|
3.5
|
3.8
|
1.0
|
C
|
A:ALA182
|
3.7
|
3.5
|
1.0
|
N
|
A:LEU183
|
3.7
|
3.8
|
1.0
|
N
|
A:ALA188
|
4.0
|
3.2
|
1.0
|
CA
|
A:ALA182
|
4.0
|
3.7
|
1.0
|
O
|
A:ASP224
|
4.0
|
3.5
|
1.0
|
O
|
A:ALA182
|
4.0
|
4.2
|
1.0
|
N
|
A:ALA186
|
4.1
|
4.4
|
1.0
|
CA
|
A:ALA186
|
4.1
|
3.9
|
1.0
|
CA
|
A:LEU183
|
4.1
|
3.8
|
1.0
|
CB
|
A:ALA188
|
4.2
|
3.9
|
1.0
|
N
|
A:ALA182
|
4.2
|
3.7
|
1.0
|
CG2
|
A:ILE220
|
4.2
|
6.2
|
1.0
|
CB
|
A:ALA186
|
4.2
|
4.8
|
1.0
|
N
|
A:PRO184
|
4.3
|
4.1
|
1.0
|
N
|
A:ILE187
|
4.3
|
3.6
|
1.0
|
CA
|
A:PRO184
|
4.5
|
4.7
|
1.0
|
OE1
|
A:GLU226
|
4.5
|
4.0
|
1.0
|
C
|
A:PRO184
|
4.5
|
4.6
|
1.0
|
CA
|
A:ILE187
|
4.5
|
3.5
|
1.0
|
NH2
|
A:ARG276
|
4.5
|
4.0
|
0.6
|
O
|
A:PRO184
|
4.6
|
5.6
|
1.0
|
C
|
A:ILE187
|
4.6
|
3.2
|
1.0
|
NH2
|
A:ARG276
|
4.6
|
9.2
|
0.4
|
CA
|
A:GLY181
|
4.6
|
3.8
|
1.0
|
CA
|
A:ALA188
|
4.6
|
3.1
|
1.0
|
O
|
A:PRO180
|
4.8
|
4.2
|
1.0
|
CB
|
A:LEU183
|
4.9
|
4.2
|
1.0
|
|
Calcium binding site 7 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 7 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1311
b:4.0
occ:1.00
|
OD1
|
B:ASP287
|
2.3
|
4.1
|
0.6
|
OD1
|
B:ASP287
|
2.3
|
7.4
|
0.4
|
O
|
B:GLY297
|
2.3
|
5.3
|
1.0
|
O
|
B:ALA295
|
2.3
|
4.8
|
1.0
|
O
|
B:ILE288
|
2.3
|
4.5
|
0.5
|
OD1
|
B:ASP299
|
2.3
|
4.8
|
1.0
|
O
|
B:ILE288
|
2.3
|
4.5
|
0.5
|
O
|
B:HOH2499
|
2.4
|
4.9
|
1.0
|
CG
|
B:ASP287
|
3.4
|
8.0
|
0.4
|
C
|
B:ILE288
|
3.4
|
4.3
|
0.5
|
C
|
B:GLY297
|
3.5
|
5.5
|
1.0
|
C
|
B:ILE288
|
3.5
|
4.3
|
0.5
|
CG
|
B:ASP287
|
3.5
|
4.4
|
0.6
|
CG
|
B:ASP299
|
3.5
|
4.2
|
1.0
|
C
|
B:ALA295
|
3.5
|
4.7
|
1.0
|
N
|
B:GLY297
|
3.7
|
5.7
|
1.0
|
OG
|
B:SER302
|
3.7
|
5.2
|
1.0
|
N
|
B:ILE288
|
3.8
|
4.5
|
1.0
|
OD2
|
B:ASP287
|
4.0
|
9.4
|
0.4
|
N
|
B:ALA295
|
4.0
|
4.7
|
1.0
|
C
|
B:ILE296
|
4.1
|
5.7
|
1.0
|
OD2
|
B:ASP287
|
4.1
|
6.1
|
0.6
|
CA
|
B:GLY297
|
4.2
|
6.1
|
1.0
|
CA
|
B:ILE288
|
4.2
|
4.4
|
1.0
|
CB
|
B:ASP299
|
4.3
|
4.7
|
1.0
|
C
|
B:ASP287
|
4.3
|
4.8
|
0.3
|
C
|
B:ASP287
|
4.4
|
5.0
|
0.3
|
CA
|
B:ALA295
|
4.4
|
4.7
|
1.0
|
N
|
B:ILE296
|
4.4
|
4.9
|
1.0
|
OD2
|
B:ASP299
|
4.4
|
4.3
|
1.0
|
CA
|
B:ILE296
|
4.4
|
5.7
|
1.0
|
N
|
B:LYS289
|
4.5
|
4.3
|
0.5
|
N
|
B:LYS289
|
4.5
|
4.4
|
0.5
|
CG
|
B:LYS289
|
4.5
|
6.2
|
0.5
|
N
|
B:ASP299
|
4.5
|
4.5
|
1.0
|
N
|
B:ASP298
|
4.5
|
5.5
|
1.0
|
O
|
B:GLY303
|
4.5
|
4.1
|
1.0
|
C
|
B:ASP287
|
4.6
|
5.6
|
0.3
|
CA
|
B:ASP287
|
4.6
|
4.5
|
0.6
|
CB
|
B:ASP287
|
4.6
|
5.0
|
0.6
|
CB
|
B:ASP287
|
4.6
|
6.1
|
0.4
|
CA
|
B:ASP287
|
4.7
|
5.7
|
0.4
|
CA
|
B:LYS289
|
4.7
|
4.5
|
0.5
|
O
|
B:ILE296
|
4.7
|
7.3
|
1.0
|
CA
|
B:LYS289
|
4.7
|
4.3
|
0.5
|
CB
|
B:ILE288
|
4.8
|
4.3
|
1.0
|
CA
|
B:ASP298
|
4.8
|
5.1
|
1.0
|
C
|
B:ASP298
|
4.8
|
5.2
|
1.0
|
CG
|
B:LYS289
|
4.8
|
5.5
|
0.5
|
O
|
B:ASP287
|
5.0
|
5.5
|
0.3
|
|
Calcium binding site 8 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 8 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1312
b:4.3
occ:1.00
|
O
|
B:THR214
|
2.3
|
5.6
|
1.0
|
O
|
B:VAL219
|
2.3
|
5.1
|
1.0
|
OE1
|
B:GLN221
|
2.3
|
5.6
|
1.0
|
O
|
B:HOH2493
|
2.3
|
2.8
|
0.5
|
OD1
|
B:ASP224
|
2.3
|
4.8
|
1.0
|
OD2
|
B:ASP217
|
2.4
|
6.0
|
1.0
|
CG
|
B:ASP217
|
3.3
|
6.4
|
1.0
|
CD
|
B:GLN221
|
3.3
|
5.6
|
1.0
|
CG
|
B:ASP224
|
3.3
|
4.4
|
1.0
|
C
|
B:THR214
|
3.5
|
5.5
|
1.0
|
C
|
B:VAL219
|
3.5
|
5.0
|
1.0
|
OD1
|
B:ASP217
|
3.5
|
8.8
|
1.0
|
NE2
|
B:GLN221
|
3.8
|
7.2
|
1.0
|
OD2
|
B:ASP224
|
3.8
|
6.6
|
1.0
|
N
|
B:GLN221
|
4.0
|
4.8
|
1.0
|
O
|
B:HOH2392
|
4.1
|
17.7
|
1.0
|
CB
|
B:THR214
|
4.2
|
6.0
|
1.0
|
N
|
B:VAL219
|
4.2
|
5.7
|
1.0
|
CA
|
B:THR214
|
4.3
|
5.2
|
1.0
|
CA
|
B:ILE220
|
4.3
|
5.3
|
1.0
|
N
|
B:ILE220
|
4.4
|
5.2
|
1.0
|
N
|
B:ALA215
|
4.4
|
6.1
|
1.0
|
CA
|
B:VAL219
|
4.4
|
5.5
|
1.0
|
CA
|
B:ALA215
|
4.4
|
6.0
|
1.0
|
OD1
|
B:ASP298
|
4.4
|
5.1
|
1.0
|
CB
|
B:ASP224
|
4.5
|
3.8
|
1.0
|
CG
|
B:GLN221
|
4.5
|
6.4
|
1.0
|
C
|
B:ILE220
|
4.6
|
5.5
|
1.0
|
CB
|
B:GLN221
|
4.6
|
5.9
|
1.0
|
CB
|
B:ASP217
|
4.7
|
7.2
|
1.0
|
OG1
|
B:THR214
|
4.7
|
6.5
|
1.0
|
N
|
B:ASP217
|
4.8
|
6.2
|
1.0
|
O
|
B:HOH2494
|
4.8
|
5.0
|
1.0
|
CB
|
B:VAL219
|
4.8
|
6.8
|
1.0
|
C
|
B:ALA215
|
4.9
|
6.5
|
1.0
|
N
|
B:GLY216
|
4.9
|
6.0
|
1.0
|
N
|
B:TYR218
|
5.0
|
6.2
|
1.0
|
CA
|
B:GLN221
|
5.0
|
5.2
|
1.0
|
|
Calcium binding site 9 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 9 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1313
b:4.9
occ:0.70
|
CA
|
B:CA1313
|
0.0
|
4.9
|
0.7
|
CA
|
B:CA1313
|
0.7
|
7.5
|
0.3
|
O
|
B:HOH2112
|
1.4
|
9.2
|
0.3
|
OD1
|
B:ASN29
|
2.3
|
6.0
|
1.0
|
O
|
B:HOH2077
|
2.3
|
6.5
|
1.0
|
OE1
|
B:GLU49
|
2.3
|
6.3
|
0.7
|
O
|
B:HOH2264
|
2.4
|
7.1
|
0.7
|
OD2
|
B:ASP98
|
2.4
|
5.9
|
0.8
|
O
|
B:HOH2118
|
2.4
|
12.4
|
0.7
|
OE2
|
B:GLU49
|
2.6
|
7.9
|
0.3
|
OE2
|
B:GLU49
|
2.7
|
9.6
|
0.7
|
OE1
|
B:GLU49
|
2.7
|
8.9
|
0.3
|
CD
|
B:GLU49
|
2.9
|
6.7
|
0.7
|
CD
|
B:GLU49
|
3.0
|
6.5
|
0.3
|
CG
|
B:ASP98
|
3.4
|
5.0
|
0.8
|
CG
|
B:ASN29
|
3.5
|
5.0
|
1.0
|
CB
|
B:ASP98
|
3.8
|
3.9
|
0.8
|
O
|
B:HOH2119
|
3.8
|
5.7
|
0.3
|
O
|
B:HOH2208
|
4.0
|
23.8
|
1.0
|
ND2
|
B:ASN29
|
4.0
|
5.8
|
1.0
|
O
|
B:HOH2032
|
4.4
|
15.5
|
1.0
|
OG1
|
B:THR132
|
4.4
|
2.9
|
0.3
|
NE1
|
B:TRP100
|
4.4
|
5.0
|
1.0
|
CG
|
B:GLU49
|
4.4
|
5.4
|
0.7
|
OD1
|
B:ASP98
|
4.5
|
7.3
|
0.8
|
CG
|
B:GLU49
|
4.5
|
5.4
|
0.3
|
O
|
B:HOH2116
|
4.6
|
9.5
|
1.0
|
O
|
B:HOH2023
|
4.6
|
12.2
|
1.0
|
O
|
B:GLY27
|
4.6
|
6.4
|
1.0
|
CG2
|
B:THR132
|
4.6
|
7.4
|
0.3
|
CB
|
B:ASN29
|
4.7
|
4.5
|
1.0
|
CB
|
B:THR132
|
4.8
|
5.4
|
0.7
|
CZ2
|
B:TRP100
|
4.9
|
5.6
|
1.0
|
CG2
|
B:THR132
|
4.9
|
6.2
|
0.7
|
O
|
B:HOH2117
|
5.0
|
10.7
|
1.0
|
OG1
|
B:THR132
|
5.0
|
10.6
|
0.7
|
|
Calcium binding site 10 out
of 12 in 2ixt
Go back to
Calcium Binding Sites List in 2ixt
Calcium binding site 10 out
of 12 in the Sphericase
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Sphericase within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1313
b:7.5
occ:0.30
|
CA
|
B:CA1313
|
0.0
|
7.5
|
0.3
|
CA
|
B:CA1313
|
0.7
|
4.9
|
0.7
|
OD2
|
B:ASP98
|
1.7
|
5.9
|
0.8
|
O
|
B:HOH2112
|
2.0
|
9.2
|
0.3
|
O
|
B:HOH2118
|
2.3
|
12.4
|
0.7
|
OE1
|
B:GLU49
|
2.4
|
6.3
|
0.7
|
O
|
B:HOH2077
|
2.5
|
6.5
|
1.0
|
OE1
|
B:GLU49
|
2.5
|
8.9
|
0.3
|
OD1
|
B:ASN29
|
2.6
|
6.0
|
1.0
|
OE2
|
B:GLU49
|
2.7
|
9.6
|
0.7
|
CG
|
B:ASP98
|
2.8
|
5.0
|
0.8
|
OE2
|
B:GLU49
|
2.9
|
7.9
|
0.3
|
CD
|
B:GLU49
|
2.9
|
6.7
|
0.7
|
CD
|
B:GLU49
|
3.0
|
6.5
|
0.3
|
O
|
B:HOH2264
|
3.0
|
7.1
|
0.7
|
CB
|
B:ASP98
|
3.3
|
3.9
|
0.8
|
O
|
B:HOH2208
|
3.4
|
23.8
|
1.0
|
O
|
B:HOH2119
|
3.7
|
5.7
|
0.3
|
CG
|
B:ASN29
|
3.8
|
5.0
|
1.0
|
OD1
|
B:ASP98
|
3.8
|
7.3
|
0.8
|
CG
|
B:GLU49
|
4.4
|
5.4
|
0.7
|
ND2
|
B:ASN29
|
4.5
|
5.8
|
1.0
|
CG
|
B:GLU49
|
4.5
|
5.4
|
0.3
|
O
|
B:GLY27
|
4.6
|
6.4
|
1.0
|
O
|
B:HOH2023
|
4.6
|
12.2
|
1.0
|
NE1
|
B:TRP100
|
4.7
|
5.0
|
1.0
|
CA
|
B:ASP98
|
4.8
|
4.2
|
1.0
|
O
|
B:HOH2115
|
4.8
|
57.2
|
1.0
|
O
|
B:HOH2117
|
4.8
|
10.7
|
1.0
|
O
|
B:HOH2032
|
4.8
|
15.5
|
1.0
|
C
|
B:GLY27
|
4.9
|
5.4
|
1.0
|
CB
|
B:ASN29
|
4.9
|
4.5
|
1.0
|
CB
|
B:GLU49
|
5.0
|
4.8
|
0.7
|
OG1
|
B:THR132
|
5.0
|
2.9
|
0.3
|
|
Reference:
O.Almog,
A.Gonzalez,
N.Godin,
M.De Leeuw,
M.J.Mekel,
D.Klein,
S.Braun,
G.Shoham,
R.L.Walter.
The Crystal Structures of the Psychrophilic Subtilisin S41 and the Mesophilic Subtilisin Sph Reveal the Same Calcium-Loaded State. Proteins V. 74 489 2009.
ISSN: ISSN 0887-3585
PubMed: 18655058
DOI: 10.1002/PROT.22175
Page generated: Fri Jul 12 13:12:27 2024
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