Calcium in PDB 8im8: Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
Enzymatic activity of Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
All present enzymatic activity of Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli:
3.2.1.1;
Protein crystallography data
The structure of Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli, PDB code: 8im8
was solved by
Y.An,
J.T.Park,
K.H.Park,
E.J.Woo,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
20.02 /
2.70
|
|
Space group
|
H 3
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
133.242,
133.242,
386.269,
90,
90,
120
|
|
R / Rfree (%)
|
17.8 /
23.4
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
(pdb code 8im8). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the
Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli, PDB code: 8im8:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Calcium binding site 1 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 1 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca701
b:39.9
occ:1.00
|
O
|
A:ASP203
|
2.1
|
36.5
|
1.0
|
|
OD1
|
A:ASP207
|
2.3
|
38.5
|
1.0
|
|
OD1
|
A:ASN201
|
2.3
|
41.5
|
1.0
|
|
OD1
|
A:ASN206
|
2.3
|
45.5
|
1.0
|
|
OD2
|
A:ASP227
|
2.4
|
35.0
|
1.0
|
|
O
|
A:HOH807
|
2.4
|
33.9
|
1.0
|
|
O
|
A:GLY225
|
2.5
|
32.9
|
1.0
|
|
C
|
A:ASP203
|
3.2
|
38.5
|
1.0
|
|
CG
|
A:ASP227
|
3.3
|
36.2
|
1.0
|
|
CG
|
A:ASN201
|
3.3
|
34.6
|
1.0
|
|
CG
|
A:ASP207
|
3.4
|
39.7
|
1.0
|
|
CG
|
A:ASN206
|
3.5
|
39.2
|
1.0
|
|
C
|
A:GLY225
|
3.6
|
36.5
|
1.0
|
|
CB
|
A:ASP227
|
3.6
|
32.4
|
1.0
|
|
ND2
|
A:ASN201
|
3.9
|
34.2
|
1.0
|
|
OD2
|
A:ASP207
|
4.0
|
36.8
|
1.0
|
|
CA
|
A:GLY225
|
4.0
|
33.0
|
1.0
|
|
ND2
|
A:ASN206
|
4.1
|
38.4
|
1.0
|
|
N
|
A:ASP203
|
4.1
|
40.0
|
1.0
|
|
N
|
A:PRO204
|
4.1
|
39.5
|
1.0
|
|
CA
|
A:PRO204
|
4.1
|
36.8
|
1.0
|
|
CA
|
A:ASP203
|
4.1
|
37.1
|
1.0
|
|
OD1
|
A:ASP227
|
4.2
|
35.7
|
1.0
|
|
N
|
A:ASP207
|
4.4
|
38.4
|
1.0
|
|
O
|
A:ASN286
|
4.4
|
41.1
|
1.0
|
|
C
|
A:ASN206
|
4.5
|
36.0
|
1.0
|
|
CB
|
A:ASP203
|
4.5
|
34.1
|
1.0
|
|
CA
|
A:ASP207
|
4.5
|
39.5
|
1.0
|
|
CB
|
A:ASN201
|
4.5
|
33.8
|
1.0
|
|
CB
|
A:ASP207
|
4.6
|
34.0
|
1.0
|
|
CA
|
A:ASN201
|
4.6
|
34.7
|
1.0
|
|
C
|
A:GLY226
|
4.7
|
34.1
|
1.0
|
|
O
|
A:ASN206
|
4.7
|
35.6
|
1.0
|
|
N
|
A:ASN206
|
4.7
|
34.4
|
1.0
|
|
O
|
A:GLY226
|
4.7
|
36.3
|
1.0
|
|
N
|
A:GLY226
|
4.7
|
33.1
|
1.0
|
|
N
|
A:ASP227
|
4.8
|
32.1
|
1.0
|
|
CB
|
A:ASN206
|
4.8
|
38.1
|
1.0
|
|
C
|
A:PRO204
|
4.8
|
35.8
|
1.0
|
|
N
|
A:GLY202
|
4.8
|
35.5
|
1.0
|
|
CA
|
A:ASP227
|
4.8
|
32.4
|
1.0
|
|
CA
|
A:ASN206
|
4.9
|
36.9
|
1.0
|
|
C
|
A:ASN201
|
5.0
|
37.5
|
1.0
|
|
Calcium binding site 2 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 2 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca702
b:60.4
occ:1.00
|
OD1
|
A:ASN314
|
2.0
|
47.3
|
1.0
|
|
O
|
A:LEU397
|
2.1
|
59.9
|
1.0
|
|
O
|
A:HOH815
|
2.1
|
47.6
|
1.0
|
|
OD1
|
A:ASP406
|
2.3
|
61.6
|
1.0
|
|
O
|
A:HIS464
|
2.4
|
54.2
|
1.0
|
|
CG
|
A:ASP406
|
2.8
|
53.6
|
1.0
|
|
OD2
|
A:ASP406
|
3.0
|
52.8
|
1.0
|
|
CG
|
A:ASN314
|
3.1
|
45.4
|
1.0
|
|
C
|
A:LEU397
|
3.3
|
50.7
|
1.0
|
|
ND2
|
A:ASN314
|
3.5
|
45.2
|
1.0
|
|
C
|
A:HIS464
|
3.6
|
48.0
|
1.0
|
|
O
|
A:MET399
|
3.9
|
56.7
|
1.0
|
|
CB
|
A:ASP406
|
4.0
|
43.4
|
1.0
|
|
CB
|
A:HIS464
|
4.1
|
48.1
|
1.0
|
|
CA
|
A:LEU397
|
4.2
|
51.6
|
1.0
|
|
N
|
A:THR398
|
4.2
|
49.4
|
1.0
|
|
O
|
A:ASP396
|
4.2
|
58.1
|
1.0
|
|
CA
|
A:THR398
|
4.3
|
53.5
|
1.0
|
|
CA
|
A:HIS464
|
4.4
|
46.9
|
1.0
|
|
O
|
A:ASN314
|
4.4
|
46.3
|
1.0
|
|
CB
|
A:ASN314
|
4.5
|
34.5
|
1.0
|
|
CG2
|
A:VAL465
|
4.6
|
39.1
|
1.0
|
|
N
|
A:VAL465
|
4.7
|
42.6
|
1.0
|
|
C
|
A:THR398
|
4.7
|
56.5
|
1.0
|
|
NH2
|
A:ARG383
|
4.7
|
39.0
|
1.0
|
|
CA
|
A:ASN314
|
4.7
|
41.0
|
1.0
|
|
O
|
A:ILE407
|
4.8
|
38.9
|
1.0
|
|
N
|
A:MET399
|
4.8
|
53.2
|
1.0
|
|
CA
|
A:ASP406
|
4.9
|
35.2
|
1.0
|
|
CA
|
A:VAL465
|
4.9
|
50.9
|
1.0
|
|
Calcium binding site 3 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 3 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca701
b:29.4
occ:1.00
|
O
|
B:ASP203
|
2.1
|
40.2
|
1.0
|
|
OD1
|
B:ASP207
|
2.1
|
37.8
|
1.0
|
|
OD1
|
B:ASN201
|
2.2
|
40.2
|
1.0
|
|
O
|
B:GLY225
|
2.3
|
28.6
|
1.0
|
|
O
|
B:HOH809
|
2.3
|
29.5
|
1.0
|
|
OD2
|
B:ASP227
|
2.3
|
34.5
|
1.0
|
|
OD1
|
B:ASN206
|
2.3
|
38.6
|
1.0
|
|
CG
|
B:ASN201
|
3.2
|
35.5
|
1.0
|
|
CG
|
B:ASP227
|
3.2
|
31.8
|
1.0
|
|
C
|
B:ASP203
|
3.3
|
38.4
|
1.0
|
|
CG
|
B:ASP207
|
3.3
|
34.2
|
1.0
|
|
CG
|
B:ASN206
|
3.4
|
38.3
|
1.0
|
|
C
|
B:GLY225
|
3.4
|
29.5
|
1.0
|
|
CB
|
B:ASP227
|
3.6
|
29.4
|
1.0
|
|
ND2
|
B:ASN201
|
3.8
|
31.3
|
1.0
|
|
OD2
|
B:ASP207
|
3.9
|
37.2
|
1.0
|
|
ND2
|
B:ASN206
|
3.9
|
30.9
|
1.0
|
|
N
|
B:ASP203
|
4.0
|
45.0
|
1.0
|
|
CA
|
B:GLY225
|
4.0
|
30.4
|
1.0
|
|
CA
|
B:ASP203
|
4.1
|
41.1
|
1.0
|
|
N
|
B:PRO204
|
4.2
|
42.8
|
1.0
|
|
OD1
|
B:ASP227
|
4.3
|
32.6
|
1.0
|
|
CA
|
B:PRO204
|
4.3
|
33.7
|
1.0
|
|
CB
|
B:ASN201
|
4.3
|
27.6
|
1.0
|
|
N
|
B:ASP207
|
4.4
|
29.2
|
1.0
|
|
CB
|
B:ASP203
|
4.4
|
37.6
|
1.0
|
|
CA
|
B:ASN201
|
4.4
|
32.4
|
1.0
|
|
CB
|
B:ASP207
|
4.5
|
23.9
|
1.0
|
|
O
|
B:ASN286
|
4.5
|
36.4
|
1.0
|
|
C
|
B:GLY226
|
4.5
|
26.7
|
1.0
|
|
N
|
B:GLY226
|
4.5
|
32.0
|
1.0
|
|
CA
|
B:ASP207
|
4.6
|
27.8
|
1.0
|
|
N
|
B:ASP227
|
4.6
|
25.2
|
1.0
|
|
C
|
B:ASN206
|
4.7
|
31.9
|
1.0
|
|
N
|
B:GLY202
|
4.7
|
28.3
|
1.0
|
|
O
|
B:GLY226
|
4.7
|
33.4
|
1.0
|
|
CA
|
B:ASP227
|
4.8
|
31.7
|
1.0
|
|
CB
|
B:ASN206
|
4.8
|
28.2
|
1.0
|
|
CA
|
B:GLY226
|
4.8
|
31.3
|
1.0
|
|
C
|
B:ASN201
|
4.8
|
34.6
|
1.0
|
|
N
|
B:ASN206
|
4.8
|
31.9
|
1.0
|
|
C
|
B:PRO204
|
4.9
|
32.2
|
1.0
|
|
CA
|
B:ASN206
|
5.0
|
34.1
|
1.0
|
|
Calcium binding site 4 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 4 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca702
b:52.5
occ:1.00
|
OD1
|
B:ASP406
|
2.1
|
71.0
|
1.0
|
|
O
|
B:HOH821
|
2.2
|
50.4
|
1.0
|
|
O
|
B:LEU397
|
2.2
|
53.5
|
1.0
|
|
OD2
|
B:ASP406
|
2.3
|
64.9
|
1.0
|
|
OD1
|
B:ASN314
|
2.4
|
52.2
|
1.0
|
|
CG
|
B:ASP406
|
2.5
|
59.3
|
1.0
|
|
O
|
B:HIS464
|
2.6
|
53.8
|
1.0
|
|
O
|
B:HOH831
|
2.6
|
46.3
|
1.0
|
|
O
|
B:HOH848
|
2.6
|
49.3
|
1.0
|
|
C
|
B:LEU397
|
3.5
|
50.8
|
1.0
|
|
CG
|
B:ASN314
|
3.5
|
47.1
|
1.0
|
|
C
|
B:HIS464
|
3.8
|
47.1
|
1.0
|
|
CB
|
B:ASP406
|
4.0
|
50.2
|
1.0
|
|
ND2
|
B:ASN314
|
4.1
|
38.8
|
1.0
|
|
O
|
B:MET399
|
4.2
|
45.6
|
1.0
|
|
NH2
|
B:ARG383
|
4.3
|
52.5
|
1.0
|
|
O
|
B:ASN314
|
4.3
|
39.2
|
1.0
|
|
N
|
B:THR398
|
4.3
|
49.4
|
1.0
|
|
CA
|
B:THR398
|
4.4
|
49.0
|
1.0
|
|
CB
|
B:HIS464
|
4.4
|
39.4
|
1.0
|
|
CA
|
B:LEU397
|
4.4
|
53.3
|
1.0
|
|
CG2
|
B:VAL465
|
4.5
|
41.6
|
1.0
|
|
CA
|
B:HIS464
|
4.6
|
46.2
|
1.0
|
|
CA
|
B:ASP406
|
4.7
|
47.8
|
1.0
|
|
O
|
B:ASP396
|
4.7
|
51.9
|
1.0
|
|
CB
|
B:ASN314
|
4.7
|
33.8
|
1.0
|
|
N
|
B:VAL465
|
4.7
|
39.7
|
1.0
|
|
N
|
B:ILE407
|
4.8
|
44.5
|
1.0
|
|
CA
|
B:ASN314
|
4.8
|
36.1
|
1.0
|
|
C
|
B:THR398
|
4.8
|
50.6
|
1.0
|
|
CA
|
B:VAL465
|
4.9
|
49.2
|
1.0
|
|
C
|
B:ASN314
|
5.0
|
37.1
|
1.0
|
|
Calcium binding site 5 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 5 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca701
b:34.8
occ:1.00
|
O
|
C:HOH817
|
2.3
|
36.7
|
1.0
|
|
OD1
|
C:ASP207
|
2.3
|
45.3
|
1.0
|
|
O
|
C:ASP203
|
2.3
|
47.3
|
1.0
|
|
O
|
C:GLY225
|
2.3
|
29.4
|
1.0
|
|
OD1
|
C:ASN206
|
2.4
|
42.8
|
1.0
|
|
OD2
|
C:ASP227
|
2.5
|
41.9
|
1.0
|
|
OD1
|
C:ASN201
|
2.5
|
39.2
|
1.0
|
|
CG
|
C:ASP227
|
3.3
|
37.9
|
1.0
|
|
CG
|
C:ASN201
|
3.3
|
36.9
|
1.0
|
|
C
|
C:GLY225
|
3.4
|
31.8
|
1.0
|
|
C
|
C:ASP203
|
3.5
|
41.6
|
1.0
|
|
CG
|
C:ASP207
|
3.6
|
42.3
|
1.0
|
|
CG
|
C:ASN206
|
3.6
|
38.1
|
1.0
|
|
ND2
|
C:ASN201
|
3.7
|
32.6
|
1.0
|
|
CB
|
C:ASP227
|
3.7
|
29.8
|
1.0
|
|
CA
|
C:GLY225
|
3.9
|
32.6
|
1.0
|
|
OD1
|
C:ASP227
|
4.2
|
40.3
|
1.0
|
|
ND2
|
C:ASN206
|
4.2
|
39.1
|
1.0
|
|
N
|
C:ASP203
|
4.3
|
38.0
|
1.0
|
|
N
|
C:ASP207
|
4.3
|
39.8
|
1.0
|
|
OD2
|
C:ASP207
|
4.3
|
50.8
|
1.0
|
|
CA
|
C:ASP203
|
4.3
|
41.5
|
1.0
|
|
N
|
C:PRO204
|
4.4
|
39.8
|
1.0
|
|
CA
|
C:PRO204
|
4.4
|
35.2
|
1.0
|
|
CB
|
C:ASN201
|
4.4
|
33.2
|
1.0
|
|
CA
|
C:ASP207
|
4.4
|
37.2
|
1.0
|
|
C
|
C:ASN206
|
4.5
|
38.8
|
1.0
|
|
CB
|
C:ASP203
|
4.5
|
41.7
|
1.0
|
|
N
|
C:GLY226
|
4.5
|
33.6
|
1.0
|
|
O
|
C:ASN286
|
4.6
|
36.6
|
1.0
|
|
CA
|
C:ASN201
|
4.6
|
34.6
|
1.0
|
|
CB
|
C:ASP207
|
4.6
|
38.9
|
1.0
|
|
C
|
C:GLY226
|
4.6
|
35.2
|
1.0
|
|
C
|
C:PRO204
|
4.7
|
38.5
|
1.0
|
|
N
|
C:ASN206
|
4.7
|
31.3
|
1.0
|
|
N
|
C:ASP227
|
4.8
|
29.9
|
1.0
|
|
O
|
C:ASN206
|
4.8
|
35.2
|
1.0
|
|
CB
|
C:ASN206
|
4.8
|
34.0
|
1.0
|
|
O
|
C:GLY226
|
4.8
|
38.6
|
1.0
|
|
CA
|
C:GLY226
|
4.9
|
31.1
|
1.0
|
|
O
|
C:PRO204
|
4.9
|
43.8
|
1.0
|
|
CA
|
C:ASP227
|
4.9
|
31.1
|
1.0
|
|
CA
|
C:ASN206
|
4.9
|
37.6
|
1.0
|
|
N
|
C:GLY202
|
4.9
|
37.2
|
1.0
|
|
Calcium binding site 6 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 6 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca702
b:116.9
occ:1.00
|
OD1
|
C:ASP406
|
2.1
|
87.8
|
1.0
|
|
O
|
C:LEU397
|
2.3
|
109.2
|
1.0
|
|
O
|
C:HOH803
|
2.3
|
72.8
|
1.0
|
|
O
|
C:HIS464
|
2.5
|
97.7
|
1.0
|
|
OD1
|
C:ASN314
|
2.5
|
88.9
|
1.0
|
|
OD2
|
C:ASP406
|
2.7
|
89.3
|
1.0
|
|
CG
|
C:ASP406
|
2.7
|
84.2
|
1.0
|
|
C
|
C:LEU397
|
3.5
|
104.5
|
1.0
|
|
CG
|
C:ASN314
|
3.7
|
75.3
|
1.0
|
|
C
|
C:HIS464
|
3.7
|
92.8
|
1.0
|
|
CG2
|
C:VAL465
|
4.1
|
89.3
|
1.0
|
|
NH2
|
C:ARG383
|
4.2
|
73.5
|
1.0
|
|
O
|
C:ASN314
|
4.2
|
63.5
|
1.0
|
|
CB
|
C:ASP406
|
4.3
|
65.8
|
1.0
|
|
ND2
|
C:ASN314
|
4.3
|
80.8
|
1.0
|
|
N
|
C:THR398
|
4.3
|
99.4
|
1.0
|
|
CA
|
C:THR398
|
4.4
|
94.9
|
1.0
|
|
CA
|
C:LEU397
|
4.4
|
97.7
|
1.0
|
|
O
|
C:ILE407
|
4.4
|
66.1
|
1.0
|
|
CB
|
C:HIS464
|
4.5
|
92.5
|
1.0
|
|
O
|
C:MET399
|
4.5
|
84.3
|
1.0
|
|
N
|
C:VAL465
|
4.6
|
91.1
|
1.0
|
|
CA
|
C:VAL465
|
4.6
|
94.3
|
1.0
|
|
O
|
C:ASP396
|
4.6
|
101.8
|
1.0
|
|
CA
|
C:HIS464
|
4.7
|
91.1
|
1.0
|
|
CA
|
C:ASN314
|
4.8
|
61.5
|
1.0
|
|
CB
|
C:ASN314
|
4.8
|
63.7
|
1.0
|
|
C
|
C:THR398
|
4.8
|
91.7
|
1.0
|
|
CB
|
C:VAL465
|
4.9
|
91.1
|
1.0
|
|
C
|
C:ASN314
|
5.0
|
56.7
|
1.0
|
|
CA
|
C:ASP406
|
5.0
|
56.6
|
1.0
|
|
N
|
C:ILE407
|
5.0
|
59.2
|
1.0
|
|
Calcium binding site 7 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 7 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca701
b:32.3
occ:1.00
|
OD1
|
D:ASP207
|
2.0
|
42.4
|
1.0
|
|
O
|
D:ASP203
|
2.1
|
41.5
|
1.0
|
|
OD2
|
D:ASP227
|
2.3
|
36.2
|
1.0
|
|
O
|
D:HOH823
|
2.4
|
38.2
|
1.0
|
|
O
|
D:GLY225
|
2.4
|
30.4
|
1.0
|
|
OD1
|
D:ASN201
|
2.5
|
40.7
|
1.0
|
|
OD1
|
D:ASN206
|
2.5
|
39.9
|
1.0
|
|
C
|
D:ASP203
|
3.2
|
39.8
|
1.0
|
|
CG
|
D:ASP207
|
3.2
|
38.5
|
1.0
|
|
CG
|
D:ASN201
|
3.3
|
36.0
|
1.0
|
|
CG
|
D:ASP227
|
3.3
|
36.4
|
1.0
|
|
C
|
D:GLY225
|
3.5
|
30.8
|
1.0
|
|
CG
|
D:ASN206
|
3.7
|
37.6
|
1.0
|
|
CB
|
D:ASP227
|
3.8
|
30.0
|
1.0
|
|
ND2
|
D:ASN201
|
3.8
|
30.2
|
1.0
|
|
OD2
|
D:ASP207
|
3.8
|
44.5
|
1.0
|
|
CA
|
D:GLY225
|
3.9
|
31.9
|
1.0
|
|
N
|
D:PRO204
|
4.0
|
46.8
|
1.0
|
|
N
|
D:ASP203
|
4.0
|
39.5
|
1.0
|
|
CA
|
D:PRO204
|
4.0
|
40.4
|
1.0
|
|
CA
|
D:ASP203
|
4.1
|
34.9
|
1.0
|
|
ND2
|
D:ASN206
|
4.2
|
34.0
|
1.0
|
|
OD1
|
D:ASP227
|
4.4
|
36.8
|
1.0
|
|
CB
|
D:ASP203
|
4.4
|
35.8
|
1.0
|
|
CB
|
D:ASP207
|
4.4
|
31.1
|
1.0
|
|
N
|
D:ASP207
|
4.4
|
35.8
|
1.0
|
|
CB
|
D:ASN201
|
4.4
|
28.7
|
1.0
|
|
CA
|
D:ASP207
|
4.5
|
33.2
|
1.0
|
|
CA
|
D:ASN201
|
4.5
|
33.2
|
1.0
|
|
C
|
D:PRO204
|
4.6
|
41.3
|
1.0
|
|
N
|
D:GLY226
|
4.6
|
32.0
|
1.0
|
|
C
|
D:ASN206
|
4.6
|
35.3
|
1.0
|
|
C
|
D:GLY226
|
4.7
|
33.6
|
1.0
|
|
O
|
D:ASN286
|
4.7
|
39.8
|
1.0
|
|
N
|
D:ASN206
|
4.8
|
38.8
|
1.0
|
|
O
|
D:GLY226
|
4.8
|
40.2
|
1.0
|
|
N
|
D:ASP227
|
4.9
|
31.1
|
1.0
|
|
C
|
D:ASN201
|
4.9
|
40.6
|
1.0
|
|
CB
|
D:ASN206
|
4.9
|
38.7
|
1.0
|
|
N
|
D:GLY202
|
4.9
|
39.2
|
1.0
|
|
CA
|
D:GLY226
|
5.0
|
32.6
|
1.0
|
|
CA
|
D:ASP227
|
5.0
|
31.9
|
1.0
|
|
O
|
D:PRO204
|
5.0
|
42.1
|
1.0
|
|
Calcium binding site 8 out
of 8 in 8im8
Go back to
Calcium Binding Sites List in 8im8
Calcium binding site 8 out
of 8 in the Crystal Structure of Periplasmic Alpha-Amylase (Mals) From E.Coli
 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 Periplasmic Alpha-Amylase (Mals) From E.Coli within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca702
b:59.9
occ:1.00
|
O
|
D:HOH840
|
2.0
|
58.8
|
1.0
|
|
O
|
D:HOH810
|
2.1
|
39.2
|
1.0
|
|
O
|
D:HOH808
|
2.2
|
39.5
|
1.0
|
|
OD1
|
D:ASP406
|
2.2
|
53.2
|
1.0
|
|
O
|
D:LEU397
|
2.5
|
59.6
|
1.0
|
|
OD1
|
D:ASN314
|
2.6
|
56.0
|
1.0
|
|
O
|
D:HIS464
|
2.7
|
54.6
|
1.0
|
|
CG
|
D:ASP406
|
3.0
|
48.9
|
1.0
|
|
OD2
|
D:ASP406
|
3.0
|
52.0
|
1.0
|
|
C
|
D:LEU397
|
3.7
|
56.3
|
1.0
|
|
O
|
D:ILE407
|
3.8
|
35.1
|
1.0
|
|
CG
|
D:ASN314
|
3.9
|
54.0
|
1.0
|
|
C
|
D:HIS464
|
3.9
|
53.3
|
1.0
|
|
CG2
|
D:VAL465
|
4.2
|
48.6
|
1.0
|
|
O
|
D:ASN314
|
4.3
|
35.5
|
1.0
|
|
OG1
|
D:THR409
|
4.4
|
47.9
|
1.0
|
|
CA
|
D:LEU397
|
4.5
|
54.0
|
1.0
|
|
CB
|
D:ASP406
|
4.5
|
41.4
|
1.0
|
|
CA
|
D:VAL465
|
4.5
|
50.2
|
1.0
|
|
N
|
D:THR398
|
4.6
|
57.5
|
1.0
|
|
CA
|
D:THR398
|
4.6
|
52.0
|
1.0
|
|
ND2
|
D:ASN314
|
4.7
|
58.8
|
1.0
|
|
N
|
D:VAL465
|
4.7
|
55.7
|
1.0
|
|
CA
|
D:ASN314
|
4.8
|
38.3
|
1.0
|
|
CB
|
D:HIS464
|
4.8
|
48.5
|
1.0
|
|
NH1
|
D:ARG383
|
4.9
|
55.8
|
1.0
|
|
O
|
D:MET399
|
4.9
|
50.1
|
1.0
|
|
CB
|
D:ASN314
|
4.9
|
41.2
|
1.0
|
|
CA
|
D:HIS464
|
4.9
|
51.7
|
1.0
|
|
N
|
D:ILE407
|
5.0
|
37.6
|
1.0
|
|
C
|
D:ASN314
|
5.0
|
34.5
|
1.0
|
|
Reference:
Y.An,
P.L.Tran,
M.J.Yoo,
H.N.Song,
K.H.Park,
T.J.Kim,
J.T.Park,
E.J.Woo.
The Distinctive Permutated Domain Structure of Periplasmic Alpha-Amylase (Mals) From Glycoside Hydrolase Family 13 Subfamily 19. Molecules V. 28 2023.
ISSN: ESSN 1420-3049
DOI: 10.3390/MOLECULES28103972
Page generated: Wed Jul 26 13:40:26 2023
|
