Calcium in PDB 9ftw: Crystal Structure of Calcium-Activated Endou
Protein crystallography data
The structure of Crystal Structure of Calcium-Activated Endou, PDB code: 9ftw
was solved by
S.Fribourg,
S.Campagne,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
23.70 /
1.65
|
|
Space group
|
P 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
47.723,
49.742,
60.946,
88.62,
87.49,
70.35
|
|
R / Rfree (%)
|
18.8 /
21.6
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of Calcium-Activated Endou
(pdb code 9ftw). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the
Crystal Structure of Calcium-Activated Endou, PDB code: 9ftw:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 1 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca502
b:20.0
occ:1.00
|
OE2
|
A:GLU217
|
2.3
|
20.9
|
1.0
|
|
O
|
A:HOH606
|
2.4
|
19.0
|
1.0
|
|
O
|
A:HOH636
|
2.4
|
19.7
|
1.0
|
|
O
|
A:ASP279
|
2.4
|
24.3
|
1.0
|
|
O
|
A:GLN210
|
2.4
|
20.5
|
1.0
|
|
OE2
|
A:GLU284
|
2.4
|
19.5
|
1.0
|
|
OE1
|
A:GLU284
|
2.6
|
22.4
|
1.0
|
|
CD
|
A:GLU284
|
2.8
|
20.9
|
1.0
|
|
H
|
A:GLN210
|
3.2
|
22.4
|
0.0
|
|
CD
|
A:GLU217
|
3.5
|
24.1
|
1.0
|
|
C
|
A:GLN210
|
3.5
|
20.3
|
1.0
|
|
C
|
A:ASP279
|
3.6
|
24.0
|
1.0
|
|
HG2
|
A:GLU217
|
3.7
|
28.5
|
0.0
|
|
HB2
|
A:GLN210
|
3.7
|
27.6
|
0.0
|
|
HA
|
A:SER280
|
3.8
|
23.7
|
0.0
|
|
HB3
|
A:TYR209
|
3.8
|
19.5
|
0.0
|
|
HB2
|
A:ASP279
|
3.9
|
31.1
|
0.0
|
|
CG
|
A:GLU217
|
4.0
|
24.5
|
1.0
|
|
HG3
|
A:GLU217
|
4.0
|
27.4
|
0.0
|
|
N
|
A:GLN210
|
4.0
|
19.7
|
1.0
|
|
HA
|
A:ARG211
|
4.1
|
22.0
|
0.0
|
|
HD1
|
A:TYR209
|
4.1
|
20.3
|
0.0
|
|
HA
|
A:ASP279
|
4.2
|
30.0
|
0.0
|
|
HA
|
A:THR213
|
4.2
|
31.2
|
0.0
|
|
HG2
|
A:GLU290
|
4.2
|
23.9
|
0.0
|
|
OE2
|
A:GLU290
|
4.2
|
25.2
|
1.0
|
|
CA
|
A:GLN210
|
4.3
|
20.6
|
1.0
|
|
CG
|
A:GLU284
|
4.3
|
19.2
|
1.0
|
|
O
|
A:ALA212
|
4.3
|
22.5
|
1.0
|
|
CA
|
A:ASP279
|
4.4
|
24.7
|
1.0
|
|
N
|
A:ARG211
|
4.5
|
19.6
|
1.0
|
|
O
|
A:HIS215
|
4.5
|
27.8
|
1.0
|
|
OE1
|
A:GLU217
|
4.5
|
23.5
|
1.0
|
|
CB
|
A:GLN210
|
4.5
|
23.3
|
1.0
|
|
N
|
A:SER280
|
4.5
|
22.4
|
1.0
|
|
C
|
A:ARG211
|
4.6
|
21.1
|
1.0
|
|
O
|
A:ARG211
|
4.6
|
21.0
|
1.0
|
|
HG2
|
A:GLU284
|
4.6
|
19.9
|
0.0
|
|
CA
|
A:SER280
|
4.6
|
20.9
|
1.0
|
|
CA
|
A:ARG211
|
4.6
|
20.0
|
1.0
|
|
O
|
A:HOH617
|
4.6
|
20.9
|
1.0
|
|
CB
|
A:ASP279
|
4.6
|
25.4
|
1.0
|
|
HG3
|
A:GLU284
|
4.8
|
19.6
|
0.0
|
|
HB2
|
A:SER280
|
4.8
|
24.6
|
0.0
|
|
CB
|
A:TYR209
|
4.8
|
18.2
|
1.0
|
|
HG23
|
A:THR213
|
4.9
|
32.2
|
0.0
|
|
C
|
A:ALA212
|
4.9
|
23.6
|
1.0
|
|
HA
|
A:TYR209
|
5.0
|
20.9
|
0.0
|
|
O
|
A:HOH653
|
5.0
|
18.8
|
1.0
|
|
Calcium binding site 2 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 2 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca503
b:17.4
occ:1.00
|
O
|
A:ASN204
|
2.3
|
16.9
|
1.0
|
|
OD1
|
A:ASN207
|
2.3
|
23.6
|
1.0
|
|
O
|
A:HOH783
|
2.3
|
27.1
|
1.0
|
|
OD1
|
A:ASN208
|
2.4
|
19.4
|
1.0
|
|
OE1
|
A:GLU226
|
2.4
|
20.6
|
1.0
|
|
O
|
A:HOH773
|
2.5
|
27.3
|
1.0
|
|
OE2
|
A:GLU226
|
2.5
|
21.2
|
1.0
|
|
CD
|
A:GLU226
|
2.8
|
19.8
|
1.0
|
|
CG
|
A:ASN207
|
3.4
|
23.2
|
1.0
|
|
HD21
|
A:ASN207
|
3.4
|
24.9
|
0.0
|
|
CG
|
A:ASN208
|
3.5
|
18.1
|
1.0
|
|
C
|
A:ASN204
|
3.5
|
15.9
|
1.0
|
|
HG2
|
A:GLU223
|
3.5
|
26.1
|
0.0
|
|
HD21
|
A:ASN208
|
3.6
|
17.6
|
0.0
|
|
ND2
|
A:ASN207
|
3.8
|
24.3
|
1.0
|
|
HB3
|
A:ASN204
|
3.9
|
15.5
|
0.0
|
|
HA
|
A:LEU205
|
3.9
|
14.3
|
0.0
|
|
ND2
|
A:ASN208
|
4.0
|
17.6
|
1.0
|
|
H
|
A:ASN207
|
4.0
|
18.3
|
0.0
|
|
HA
|
A:ASN204
|
4.1
|
14.0
|
0.0
|
|
CA
|
A:ASN204
|
4.3
|
15.2
|
1.0
|
|
CG
|
A:GLU226
|
4.3
|
18.8
|
1.0
|
|
N
|
A:LEU205
|
4.5
|
14.5
|
1.0
|
|
CG
|
A:GLU223
|
4.5
|
24.9
|
1.0
|
|
CA
|
A:LEU205
|
4.6
|
15.3
|
1.0
|
|
HG3
|
A:GLU223
|
4.6
|
26.8
|
0.0
|
|
N
|
A:ASN208
|
4.6
|
18.7
|
1.0
|
|
CB
|
A:ASN204
|
4.6
|
16.5
|
1.0
|
|
HA
|
A:GLU223
|
4.6
|
21.8
|
0.0
|
|
HA
|
A:ASN208
|
4.6
|
19.2
|
0.0
|
|
OE2
|
A:GLU223
|
4.7
|
30.1
|
1.0
|
|
C
|
A:ASN207
|
4.7
|
19.4
|
1.0
|
|
CB
|
A:ASN207
|
4.7
|
20.9
|
1.0
|
|
CB
|
A:ASN208
|
4.7
|
17.4
|
1.0
|
|
HG2
|
A:GLU226
|
4.7
|
18.5
|
0.0
|
|
H
|
A:ASN208
|
4.7
|
18.6
|
0.0
|
|
HG3
|
A:GLU226
|
4.8
|
19.2
|
0.0
|
|
HD22
|
A:ASN207
|
4.9
|
25.1
|
0.0
|
|
N
|
A:ASN207
|
4.9
|
19.0
|
1.0
|
|
C
|
A:LEU205
|
4.9
|
16.9
|
1.0
|
|
CA
|
A:ASN208
|
4.9
|
18.1
|
1.0
|
|
HD22
|
A:ASN208
|
5.0
|
17.8
|
0.0
|
|
HB2
|
A:GLU226
|
5.0
|
16.9
|
0.0
|
|
HB3
|
A:GLU226
|
5.0
|
16.2
|
0.0
|
|
Calcium binding site 3 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 3 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca504
b:20.0
occ:1.00
|
OD1
|
A:ASP315
|
2.3
|
21.1
|
1.0
|
|
OD2
|
A:ASP179
|
2.3
|
26.5
|
1.0
|
|
O
|
A:TYR316
|
2.4
|
18.2
|
1.0
|
|
O
|
A:CYS181
|
2.4
|
22.0
|
1.0
|
|
O
|
A:HOH701
|
2.4
|
20.7
|
1.0
|
|
OD1
|
A:ASP179
|
2.5
|
22.2
|
1.0
|
|
O
|
A:HOH767
|
2.5
|
24.1
|
1.0
|
|
CG
|
A:ASP179
|
2.7
|
24.1
|
1.0
|
|
CG
|
A:ASP315
|
3.5
|
23.1
|
1.0
|
|
C
|
A:TYR316
|
3.5
|
17.5
|
1.0
|
|
C
|
A:CYS181
|
3.6
|
21.8
|
1.0
|
|
HB2
|
A:CYS181
|
3.7
|
22.5
|
0.0
|
|
HA
|
A:TYR317
|
3.7
|
20.4
|
0.0
|
|
H
|
A:CYS181
|
3.8
|
24.5
|
0.0
|
|
HA
|
A:PRO182
|
3.8
|
27.0
|
0.0
|
|
HD1
|
A:TYR317
|
3.9
|
22.6
|
0.0
|
|
H
|
A:TYR316
|
4.0
|
17.7
|
0.0
|
|
OD2
|
A:ASP315
|
4.0
|
26.8
|
1.0
|
|
N
|
A:TYR316
|
4.0
|
16.6
|
1.0
|
|
HB3
|
A:TYR316
|
4.0
|
17.2
|
0.0
|
|
CB
|
A:ASP179
|
4.2
|
22.7
|
1.0
|
|
O
|
A:HOH682
|
4.3
|
44.9
|
1.0
|
|
CA
|
A:TYR316
|
4.3
|
16.5
|
1.0
|
|
CA
|
A:CYS181
|
4.4
|
20.5
|
1.0
|
|
CA
|
A:PRO182
|
4.4
|
22.1
|
1.0
|
|
C
|
A:ASP315
|
4.4
|
17.2
|
1.0
|
|
CB
|
A:CYS181
|
4.4
|
20.4
|
1.0
|
|
N
|
A:PRO182
|
4.5
|
22.1
|
1.0
|
|
O
|
A:HOH635
|
4.5
|
19.4
|
1.0
|
|
N
|
A:TYR317
|
4.5
|
16.9
|
1.0
|
|
HB2
|
A:ASP179
|
4.5
|
27.9
|
0.0
|
|
N
|
A:CYS181
|
4.5
|
20.8
|
1.0
|
|
CA
|
A:TYR317
|
4.6
|
17.7
|
1.0
|
|
HA
|
A:ASP315
|
4.6
|
19.9
|
0.0
|
|
C
|
A:PRO182
|
4.6
|
21.8
|
1.0
|
|
O
|
A:HOH613
|
4.6
|
34.4
|
1.0
|
|
CD1
|
A:TYR317
|
4.7
|
19.8
|
1.0
|
|
CB
|
A:ASP315
|
4.7
|
19.2
|
1.0
|
|
O
|
A:LYS183
|
4.7
|
18.7
|
1.0
|
|
HB3
|
A:CYS181
|
4.7
|
22.3
|
0.0
|
|
CB
|
A:TYR316
|
4.7
|
16.5
|
1.0
|
|
HB3
|
A:ASP179
|
4.8
|
28.7
|
0.0
|
|
O
|
A:PRO182
|
4.8
|
22.5
|
1.0
|
|
CA
|
A:ASP315
|
4.8
|
18.1
|
1.0
|
|
HE1
|
A:TYR317
|
4.8
|
25.2
|
0.0
|
|
HA
|
A:ASP179
|
4.8
|
26.6
|
0.0
|
|
O
|
A:ASP315
|
5.0
|
17.1
|
1.0
|
|
HD2
|
A:TYR316
|
5.0
|
17.4
|
0.0
|
|
Calcium binding site 4 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 4 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca505
b:24.2
occ:1.00
|
O
|
A:HOH720
|
2.3
|
24.6
|
1.0
|
|
OE1
|
A:GLN250
|
2.3
|
32.4
|
1.0
|
|
OE2
|
A:GLU140
|
2.4
|
29.0
|
1.0
|
|
OE1
|
A:GLU140
|
2.5
|
22.6
|
1.0
|
|
O
|
A:ALA135
|
2.5
|
28.6
|
1.0
|
|
CD
|
A:GLU140
|
2.8
|
25.1
|
1.0
|
|
HE22
|
A:GLN250
|
3.1
|
40.7
|
0.0
|
|
CD
|
A:GLN250
|
3.3
|
32.5
|
1.0
|
|
HA
|
A:ILE136
|
3.5
|
31.5
|
0.0
|
|
HB3
|
A:ASP134
|
3.5
|
47.6
|
0.0
|
|
NE2
|
A:GLN250
|
3.6
|
33.0
|
1.0
|
|
HG22
|
A:THR137
|
3.7
|
34.1
|
0.0
|
|
C
|
A:ALA135
|
3.7
|
28.2
|
1.0
|
|
H
|
A:THR137
|
4.0
|
30.2
|
0.0
|
|
CG
|
A:GLU140
|
4.3
|
21.5
|
1.0
|
|
CA
|
A:ILE136
|
4.4
|
24.8
|
1.0
|
|
N
|
A:ILE136
|
4.5
|
25.5
|
1.0
|
|
CB
|
A:ASP134
|
4.5
|
37.0
|
1.0
|
|
HE21
|
A:GLN250
|
4.6
|
39.6
|
0.0
|
|
HG1
|
A:THR137
|
4.6
|
31.2
|
0.0
|
|
N
|
A:ALA135
|
4.6
|
31.4
|
1.0
|
|
HB2
|
A:ASP134
|
4.6
|
46.9
|
0.0
|
|
CG
|
A:GLN250
|
4.7
|
29.0
|
1.0
|
|
HG2
|
A:GLU140
|
4.7
|
27.9
|
0.0
|
|
HB3
|
A:GLN250
|
4.7
|
37.1
|
0.0
|
|
N
|
A:THR137
|
4.7
|
23.5
|
1.0
|
|
H
|
A:ALA135
|
4.7
|
42.6
|
0.0
|
|
CG2
|
A:THR137
|
4.7
|
25.5
|
1.0
|
|
HA
|
A:GLN250
|
4.8
|
38.8
|
0.0
|
|
CA
|
A:ALA135
|
4.8
|
30.0
|
1.0
|
|
HG3
|
A:GLU140
|
4.8
|
28.3
|
0.0
|
|
C
|
A:ASP134
|
4.9
|
33.2
|
1.0
|
|
HG12
|
A:ILE136
|
4.9
|
30.7
|
0.0
|
|
HG13
|
A:ILE136
|
5.0
|
31.7
|
0.0
|
|
Calcium binding site 5 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 5 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca506
b:16.7
occ:1.00
|
O
|
A:GLY323
|
2.3
|
20.4
|
1.0
|
|
OD1
|
A:ASP322
|
2.3
|
20.6
|
1.0
|
|
O
|
A:TRP325
|
2.4
|
17.3
|
1.0
|
|
O
|
A:HOH737
|
2.4
|
23.8
|
1.0
|
|
OD2
|
A:ASP330
|
2.4
|
18.1
|
1.0
|
|
O
|
A:HOH677
|
2.4
|
20.9
|
1.0
|
|
OD1
|
A:ASP330
|
2.6
|
16.2
|
1.0
|
|
CG
|
A:ASP330
|
2.8
|
17.0
|
1.0
|
|
C
|
A:GLY323
|
3.4
|
20.2
|
1.0
|
|
CG
|
A:ASP322
|
3.5
|
22.5
|
1.0
|
|
C
|
A:TRP325
|
3.6
|
17.4
|
1.0
|
|
N
|
A:GLY323
|
3.9
|
19.7
|
1.0
|
|
HA
|
A:ASP326
|
3.9
|
17.5
|
0.0
|
|
OD2
|
A:ASP322
|
4.1
|
26.0
|
1.0
|
|
H1
|
A:ACT501
|
4.1
|
39.6
|
0.0
|
|
N
|
A:TRP325
|
4.1
|
17.7
|
1.0
|
|
H
|
A:GLY323
|
4.1
|
17.6
|
0.0
|
|
HB2
|
A:TRP325
|
4.1
|
14.4
|
0.0
|
|
C
|
A:ASP322
|
4.1
|
19.5
|
1.0
|
|
CA
|
A:GLY323
|
4.1
|
20.1
|
1.0
|
|
H
|
A:TRP325
|
4.2
|
15.8
|
0.0
|
|
C
|
A:PRO324
|
4.3
|
19.2
|
1.0
|
|
CB
|
A:ASP330
|
4.4
|
15.3
|
1.0
|
|
H
|
A:VAL331
|
4.4
|
11.8
|
0.0
|
|
CA
|
A:TRP325
|
4.4
|
16.9
|
1.0
|
|
HA3
|
A:GLY323
|
4.4
|
18.1
|
0.0
|
|
N
|
A:PRO324
|
4.5
|
19.8
|
1.0
|
|
O
|
A:ASP322
|
4.5
|
19.0
|
1.0
|
|
HE3
|
A:TRP325
|
4.5
|
14.6
|
0.0
|
|
CB
|
A:ASP322
|
4.6
|
19.9
|
1.0
|
|
N
|
A:ASP326
|
4.6
|
18.5
|
1.0
|
|
HA
|
A:PRO324
|
4.6
|
18.6
|
0.0
|
|
CA
|
A:PRO324
|
4.7
|
19.5
|
1.0
|
|
O
|
A:PRO324
|
4.7
|
20.0
|
1.0
|
|
HB2
|
A:ASP330
|
4.7
|
12.4
|
0.0
|
|
O
|
A:ACT501
|
4.7
|
42.5
|
1.0
|
|
CA
|
A:ASP322
|
4.8
|
18.8
|
1.0
|
|
CA
|
A:ASP326
|
4.8
|
18.9
|
1.0
|
|
HB3
|
A:ASP322
|
4.8
|
19.0
|
0.0
|
|
HA
|
A:ASP322
|
4.8
|
17.1
|
0.0
|
|
CB
|
A:TRP325
|
4.8
|
16.8
|
1.0
|
|
HB3
|
A:ASP330
|
4.8
|
12.3
|
0.0
|
|
CH3
|
A:ACT501
|
4.9
|
41.7
|
1.0
|
|
H2
|
A:ACT501
|
4.9
|
39.2
|
0.0
|
|
HA
|
A:ASP330
|
5.0
|
12.4
|
0.0
|
|
Calcium binding site 6 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 6 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca501
b:20.6
occ:1.00
|
O
|
B:TYR316
|
2.4
|
19.9
|
1.0
|
|
O
|
B:CYS181
|
2.4
|
21.2
|
1.0
|
|
OD1
|
B:ASP315
|
2.4
|
25.1
|
1.0
|
|
O
|
B:HOH709
|
2.4
|
18.1
|
1.0
|
|
O
|
B:HOH747
|
2.4
|
22.0
|
1.0
|
|
OD2
|
B:ASP179
|
2.5
|
24.8
|
1.0
|
|
OD1
|
B:ASP179
|
2.5
|
23.9
|
1.0
|
|
CG
|
B:ASP179
|
2.8
|
24.6
|
1.0
|
|
CG
|
B:ASP315
|
3.5
|
26.4
|
1.0
|
|
C
|
B:CYS181
|
3.5
|
21.7
|
1.0
|
|
C
|
B:TYR316
|
3.5
|
19.1
|
1.0
|
|
HD1
|
B:TYR317
|
3.6
|
26.4
|
0.0
|
|
HB2
|
B:CYS181
|
3.7
|
23.6
|
0.0
|
|
H
|
B:CYS181
|
3.7
|
27.1
|
0.0
|
|
HA
|
B:PRO182
|
3.8
|
29.1
|
0.0
|
|
HA
|
B:TYR317
|
3.8
|
23.6
|
0.0
|
|
OD2
|
B:ASP315
|
4.0
|
29.4
|
1.0
|
|
H
|
B:TYR316
|
4.1
|
21.5
|
0.0
|
|
N
|
B:TYR316
|
4.1
|
19.4
|
1.0
|
|
HB3
|
B:TYR316
|
4.1
|
19.9
|
0.0
|
|
O
|
B:HOH666
|
4.3
|
38.4
|
1.0
|
|
CB
|
B:ASP179
|
4.3
|
23.8
|
1.0
|
|
CA
|
B:TYR316
|
4.3
|
18.4
|
1.0
|
|
CA
|
B:CYS181
|
4.4
|
21.2
|
1.0
|
|
CA
|
B:PRO182
|
4.4
|
23.3
|
1.0
|
|
N
|
B:PRO182
|
4.4
|
22.8
|
1.0
|
|
CB
|
B:CYS181
|
4.5
|
20.5
|
1.0
|
|
N
|
B:CYS181
|
4.5
|
22.2
|
1.0
|
|
N
|
B:TYR317
|
4.5
|
18.6
|
1.0
|
|
O
|
B:HOH618
|
4.5
|
19.1
|
1.0
|
|
C
|
B:ASP315
|
4.5
|
20.7
|
1.0
|
|
CD1
|
B:TYR317
|
4.6
|
21.9
|
1.0
|
|
C
|
B:PRO182
|
4.6
|
23.0
|
1.0
|
|
HE1
|
B:TYR317
|
4.6
|
29.1
|
0.0
|
|
CA
|
B:TYR317
|
4.6
|
19.4
|
1.0
|
|
HB2
|
B:ASP179
|
4.7
|
30.9
|
0.0
|
|
HA
|
B:ASP315
|
4.7
|
24.5
|
0.0
|
|
O
|
B:LYS183
|
4.7
|
18.5
|
1.0
|
|
CB
|
B:ASP315
|
4.8
|
22.9
|
1.0
|
|
HB3
|
B:CYS181
|
4.8
|
23.2
|
0.0
|
|
CB
|
B:TYR316
|
4.8
|
18.3
|
1.0
|
|
O
|
B:PRO182
|
4.8
|
25.2
|
1.0
|
|
HA
|
B:ASP179
|
4.8
|
29.4
|
0.0
|
|
HB3
|
B:ASP179
|
4.9
|
31.6
|
0.0
|
|
CA
|
B:ASP315
|
4.9
|
21.5
|
1.0
|
|
O
|
B:HOH719
|
5.0
|
39.6
|
1.0
|
|
Calcium binding site 7 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 7 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca502
b:23.3
occ:1.00
|
OD1
|
B:ASN207
|
2.1
|
25.1
|
1.0
|
|
O
|
B:ASN204
|
2.3
|
21.7
|
1.0
|
|
OE1
|
B:GLU226
|
2.4
|
28.4
|
1.0
|
|
O
|
B:HOH660
|
2.4
|
24.3
|
1.0
|
|
OE2
|
B:GLU226
|
2.4
|
28.9
|
1.0
|
|
O
|
B:HOH753
|
2.4
|
27.2
|
1.0
|
|
OD1
|
B:ASN208
|
2.4
|
27.9
|
1.0
|
|
CD
|
B:GLU226
|
2.7
|
28.0
|
1.0
|
|
HD21
|
B:ASN207
|
3.2
|
33.2
|
0.0
|
|
CG
|
B:ASN207
|
3.2
|
26.8
|
1.0
|
|
C
|
B:ASN204
|
3.5
|
20.7
|
1.0
|
|
CG
|
B:ASN208
|
3.6
|
28.3
|
1.0
|
|
ND2
|
B:ASN207
|
3.6
|
28.0
|
1.0
|
|
HB3
|
B:ASN204
|
3.7
|
25.2
|
0.0
|
|
HG2
|
B:GLU223
|
3.7
|
49.6
|
0.0
|
|
HD22
|
B:ASN208
|
3.7
|
34.1
|
0.0
|
|
HA
|
B:LEU205
|
3.8
|
22.9
|
0.0
|
|
HA
|
B:ASN204
|
4.0
|
22.1
|
0.0
|
|
H
|
B:ASN207
|
4.0
|
25.4
|
0.0
|
|
ND2
|
B:ASN208
|
4.1
|
29.3
|
1.0
|
|
CG
|
B:GLU226
|
4.2
|
24.5
|
1.0
|
|
CA
|
B:ASN204
|
4.2
|
19.5
|
1.0
|
|
N
|
B:LEU205
|
4.4
|
19.7
|
1.0
|
|
CB
|
B:ASN204
|
4.5
|
21.6
|
1.0
|
|
CA
|
B:LEU205
|
4.5
|
19.9
|
1.0
|
|
CB
|
B:ASN207
|
4.6
|
25.6
|
1.0
|
|
HA
|
B:GLU223
|
4.6
|
40.4
|
0.0
|
|
HG2
|
B:GLU226
|
4.6
|
29.5
|
0.0
|
|
HD22
|
B:ASN207
|
4.6
|
33.0
|
0.0
|
|
HA
|
B:ASN208
|
4.6
|
31.4
|
0.0
|
|
N
|
B:ASN208
|
4.7
|
25.4
|
1.0
|
|
C
|
B:ASN207
|
4.7
|
25.8
|
1.0
|
|
HG3
|
B:GLU226
|
4.8
|
30.6
|
0.0
|
|
CG
|
B:GLU223
|
4.8
|
42.7
|
1.0
|
|
HB3
|
B:GLU226
|
4.8
|
28.7
|
0.0
|
|
CB
|
B:ASN208
|
4.8
|
26.4
|
1.0
|
|
H
|
B:ASN208
|
4.8
|
29.1
|
0.0
|
|
HB2
|
B:GLU226
|
4.9
|
29.7
|
0.0
|
|
N
|
B:ASN207
|
4.9
|
22.4
|
1.0
|
|
C
|
B:LEU205
|
4.9
|
21.0
|
1.0
|
|
CB
|
B:GLU226
|
4.9
|
24.5
|
1.0
|
|
OE2
|
B:GLU223
|
4.9
|
53.6
|
1.0
|
|
O
|
B:HOH675
|
5.0
|
33.6
|
1.0
|
|
CA
|
B:ASN208
|
5.0
|
25.6
|
1.0
|
|
CA
|
B:ASN207
|
5.0
|
24.8
|
1.0
|
|
Calcium binding site 8 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 8 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca503
b:20.4
occ:1.00
|
OD1
|
B:ASP322
|
2.2
|
21.9
|
1.0
|
|
OD2
|
B:ASP330
|
2.3
|
21.2
|
1.0
|
|
O
|
B:TRP325
|
2.4
|
22.8
|
1.0
|
|
O
|
B:GLY323
|
2.4
|
20.4
|
1.0
|
|
O
|
B:HOH732
|
2.4
|
28.1
|
1.0
|
|
O
|
B:HOH737
|
2.5
|
24.9
|
1.0
|
|
OD1
|
B:ASP330
|
2.7
|
17.6
|
1.0
|
|
CG
|
B:ASP330
|
2.8
|
19.3
|
1.0
|
|
CG
|
B:ASP322
|
3.4
|
24.0
|
1.0
|
|
C
|
B:GLY323
|
3.5
|
20.5
|
1.0
|
|
C
|
B:TRP325
|
3.6
|
22.7
|
1.0
|
|
N
|
B:GLY323
|
3.9
|
20.8
|
1.0
|
|
HA
|
B:ASP326
|
3.9
|
25.3
|
0.0
|
|
H
|
B:GLY323
|
4.0
|
19.1
|
0.0
|
|
OD2
|
B:ASP322
|
4.0
|
26.9
|
1.0
|
|
CA
|
B:GLY323
|
4.1
|
20.7
|
1.0
|
|
N
|
B:TRP325
|
4.1
|
20.7
|
1.0
|
|
C
|
B:ASP322
|
4.1
|
21.7
|
1.0
|
|
H
|
B:TRP325
|
4.2
|
19.1
|
0.0
|
|
HB2
|
B:TRP325
|
4.2
|
17.4
|
0.0
|
|
CB
|
B:ASP330
|
4.3
|
16.9
|
1.0
|
|
C
|
B:PRO324
|
4.3
|
21.4
|
1.0
|
|
H
|
B:VAL331
|
4.4
|
12.4
|
0.0
|
|
HA3
|
B:GLY323
|
4.4
|
19.0
|
0.0
|
|
CA
|
B:TRP325
|
4.4
|
20.8
|
1.0
|
|
O
|
B:HOH695
|
4.4
|
31.7
|
1.0
|
|
N
|
B:PRO324
|
4.5
|
20.7
|
1.0
|
|
HE3
|
B:TRP325
|
4.5
|
17.5
|
0.0
|
|
CB
|
B:ASP322
|
4.5
|
21.6
|
1.0
|
|
O
|
B:ASP322
|
4.6
|
22.4
|
1.0
|
|
N
|
B:ASP326
|
4.6
|
24.2
|
1.0
|
|
HB2
|
B:ASP330
|
4.6
|
14.2
|
0.0
|
|
HA
|
B:PRO324
|
4.6
|
20.5
|
0.0
|
|
O
|
B:PRO324
|
4.7
|
22.5
|
1.0
|
|
CA
|
B:PRO324
|
4.7
|
20.9
|
1.0
|
|
CA
|
B:ASP322
|
4.7
|
21.2
|
1.0
|
|
HA
|
B:ASP322
|
4.7
|
20.0
|
0.0
|
|
CA
|
B:ASP326
|
4.8
|
26.7
|
1.0
|
|
HB3
|
B:ASP330
|
4.8
|
14.2
|
0.0
|
|
HB3
|
B:ASP322
|
4.8
|
21.3
|
0.0
|
|
CB
|
B:TRP325
|
4.9
|
19.6
|
1.0
|
|
O
|
B:VAL331
|
4.9
|
16.1
|
1.0
|
|
HA
|
B:ASP330
|
5.0
|
13.7
|
0.0
|
|
Calcium binding site 9 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 9 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 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 Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca504
b:24.2
occ:1.00
|
O
|
B:HOH654
|
2.2
|
26.8
|
1.0
|
|
O
|
B:HOH648
|
2.3
|
20.8
|
1.0
|
|
O
|
B:ASP279
|
2.4
|
25.7
|
1.0
|
|
OE2
|
B:GLU284
|
2.4
|
21.6
|
1.0
|
|
OE2
|
B:GLU217
|
2.4
|
33.3
|
1.0
|
|
O
|
B:GLN210
|
2.4
|
24.9
|
1.0
|
|
OE1
|
B:GLU284
|
2.5
|
21.7
|
1.0
|
|
CD
|
B:GLU284
|
2.8
|
23.4
|
1.0
|
|
H
|
B:GLN210
|
3.3
|
32.7
|
0.0
|
|
CD
|
B:GLU217
|
3.5
|
33.3
|
1.0
|
|
C
|
B:ASP279
|
3.6
|
27.1
|
1.0
|
|
C
|
B:GLN210
|
3.6
|
25.5
|
1.0
|
|
HG2
|
B:GLU217
|
3.7
|
42.8
|
0.0
|
|
HA
|
B:SER280
|
3.7
|
32.1
|
0.0
|
|
HB3
|
B:GLN210
|
3.7
|
37.1
|
0.0
|
|
HB3
|
B:TYR209
|
3.8
|
29.9
|
0.0
|
|
HG3
|
B:GLU217
|
3.8
|
41.5
|
0.0
|
|
CG
|
B:GLU217
|
3.9
|
34.0
|
1.0
|
|
HB2
|
B:ASP279
|
4.0
|
39.4
|
0.0
|
|
N
|
B:GLN210
|
4.1
|
25.8
|
1.0
|
|
HD1
|
B:TYR209
|
4.1
|
30.0
|
0.0
|
|
OE2
|
B:GLU290
|
4.2
|
28.2
|
1.0
|
|
HG2
|
B:GLU290
|
4.2
|
32.1
|
0.0
|
|
HA
|
B:ARG211
|
4.2
|
32.6
|
0.0
|
|
HA
|
B:ASP279
|
4.3
|
38.7
|
0.0
|
|
CG
|
B:GLU284
|
4.3
|
23.2
|
1.0
|
|
HA
|
B:THR213
|
4.3
|
40.1
|
0.0
|
|
CA
|
B:GLN210
|
4.3
|
25.6
|
1.0
|
|
O
|
B:ALA212
|
4.4
|
29.7
|
1.0
|
|
CA
|
B:ASP279
|
4.5
|
28.8
|
1.0
|
|
N
|
B:SER280
|
4.5
|
26.2
|
1.0
|
|
O
|
B:HOH650
|
4.5
|
22.6
|
1.0
|
|
CB
|
B:GLN210
|
4.5
|
28.3
|
1.0
|
|
O
|
B:HIS215
|
4.5
|
35.2
|
1.0
|
|
CA
|
B:SER280
|
4.6
|
25.8
|
1.0
|
|
OE1
|
B:GLU217
|
4.6
|
32.1
|
1.0
|
|
N
|
B:ARG211
|
4.6
|
26.4
|
1.0
|
|
O
|
B:ARG211
|
4.6
|
28.0
|
1.0
|
|
HG2
|
B:GLU284
|
4.6
|
26.8
|
0.0
|
|
C
|
B:ARG211
|
4.7
|
28.1
|
1.0
|
|
HG3
|
B:GLU284
|
4.7
|
26.8
|
0.0
|
|
CA
|
B:ARG211
|
4.7
|
27.3
|
1.0
|
|
CB
|
B:ASP279
|
4.7
|
29.3
|
1.0
|
|
HG3
|
B:GLN210
|
4.8
|
44.0
|
0.0
|
|
CB
|
B:TYR209
|
4.8
|
24.9
|
1.0
|
|
HB2
|
B:SER280
|
4.9
|
34.5
|
0.0
|
|
HA
|
B:TYR209
|
4.9
|
32.0
|
0.0
|
|
HB2
|
B:HIS215
|
4.9
|
48.3
|
0.0
|
|
HG23
|
B:THR213
|
5.0
|
41.0
|
0.0
|
|
C
|
B:ALA212
|
5.0
|
29.8
|
1.0
|
|
Calcium binding site 10 out
of 10 in 9ftw
Go back to
Calcium Binding Sites List in 9ftw
Calcium binding site 10 out
of 10 in the Crystal Structure of Calcium-Activated Endou
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Crystal Structure of Calcium-Activated Endou within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca505
b:23.1
occ:1.00
|
OE1
|
B:GLN250
|
2.2
|
32.7
|
1.0
|
|
O
|
B:ALA135
|
2.3
|
27.8
|
1.0
|
|
OE2
|
B:GLU140
|
2.5
|
27.0
|
1.0
|
|
O
|
B:SER133
|
2.6
|
39.1
|
1.0
|
|
O
|
B:HIS131
|
2.6
|
46.4
|
1.0
|
|
OE1
|
B:GLU140
|
2.7
|
22.4
|
1.0
|
|
CD
|
B:GLU140
|
2.9
|
27.1
|
1.0
|
|
CD
|
B:GLN250
|
3.3
|
32.8
|
1.0
|
|
HA
|
B:ILE136
|
3.3
|
32.9
|
0.0
|
|
HE22
|
B:GLN250
|
3.3
|
38.7
|
0.0
|
|
C
|
B:ALA135
|
3.5
|
28.4
|
1.0
|
|
C
|
B:SER133
|
3.7
|
39.1
|
1.0
|
|
NE2
|
B:GLN250
|
3.7
|
31.9
|
1.0
|
|
C
|
B:HIS131
|
3.7
|
47.6
|
1.0
|
|
CB
|
B:HIS131
|
4.2
|
48.8
|
1.0
|
|
HG12
|
B:ILE136
|
4.2
|
34.1
|
0.0
|
|
HG22
|
B:THR137
|
4.2
|
34.7
|
0.0
|
|
H
|
B:THR137
|
4.2
|
31.9
|
0.0
|
|
CA
|
B:ILE136
|
4.2
|
27.5
|
1.0
|
|
N
|
B:SER133
|
4.3
|
44.3
|
1.0
|
|
N
|
B:ILE136
|
4.3
|
27.7
|
1.0
|
|
HA
|
B:GLN250
|
4.4
|
35.6
|
0.0
|
|
C
|
B:SER132
|
4.4
|
46.1
|
1.0
|
|
HB3
|
B:GLN250
|
4.4
|
34.2
|
0.0
|
|
CG
|
B:GLU140
|
4.4
|
25.8
|
1.0
|
|
CA
|
B:SER133
|
4.4
|
42.4
|
1.0
|
|
N
|
B:ALA135
|
4.4
|
30.4
|
1.0
|
|
CA
|
B:HIS131
|
4.5
|
48.2
|
1.0
|
|
O
|
B:SER132
|
4.5
|
47.0
|
1.0
|
|
CA
|
B:ALA135
|
4.5
|
29.4
|
1.0
|
|
HB3
|
B:ALA135
|
4.5
|
37.3
|
0.0
|
|
HG13
|
B:ILE136
|
4.5
|
34.7
|
0.0
|
|
CG
|
B:GLN250
|
4.6
|
29.8
|
1.0
|
|
H
|
B:ALA135
|
4.6
|
39.4
|
0.0
|
|
C
|
B:ASP134
|
4.6
|
32.4
|
1.0
|
|
HE21
|
B:GLN250
|
4.7
|
38.1
|
0.0
|
|
HG2
|
B:GLU140
|
4.7
|
31.4
|
0.0
|
|
N
|
B:SER132
|
4.7
|
47.4
|
1.0
|
|
N
|
B:ASP134
|
4.8
|
36.5
|
1.0
|
|
HG1
|
B:THR137
|
4.8
|
34.8
|
0.0
|
|
CG1
|
B:ILE136
|
4.8
|
29.1
|
1.0
|
|
CB
|
B:SER133
|
4.9
|
44.7
|
1.0
|
|
HG3
|
B:GLN250
|
4.9
|
34.9
|
0.0
|
|
CB
|
B:GLN250
|
4.9
|
27.7
|
1.0
|
|
O
|
B:ASP134
|
4.9
|
32.6
|
1.0
|
|
N
|
B:THR137
|
4.9
|
26.8
|
1.0
|
|
HG3
|
B:GLU140
|
4.9
|
31.3
|
0.0
|
|
Reference:
F.Malard,
K.Dias,
M.Baudy,
S.Thore,
B.Vialet,
P.Barthelemy,
S.Fribourg,
F.V.Karginov,
S.Campagne.
Molecular Basis For the Calcium-Dependent Activation of the Ribonuclease Endou. Res Sq 2024.
ISSN: ESSN 2693-5015
PubMed: 39070628
DOI: 10.21203/RS.3.RS-4654759/V1
Page generated: Sat Sep 28 09:32:35 2024
|
