Calcium in PDB 2zj6: Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
Enzymatic activity of Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
All present enzymatic activity of Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase:
3.1.1.3;
Protein crystallography data
The structure of Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase, PDB code: 2zj6
was solved by
C.Angkawidjaja,
K.Kuwahara,
S.Kanaya,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
39.69 /
2.25
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
49.601,
84.324,
86.901,
90.00,
96.25,
90.00
|
|
R / Rfree (%)
|
16.9 /
21
|
Other elements in 2zj6:
The structure of Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
(pdb code 2zj6). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the
Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase, PDB code: 2zj6:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Calcium binding site 1 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 1 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca618
b:13.0
occ:1.00
|
OD1
|
A:ASN284
|
2.2
|
16.3
|
1.0
|
|
OE2
|
A:GLU253
|
2.3
|
9.2
|
1.0
|
|
O
|
A:HOH630
|
2.3
|
10.5
|
1.0
|
|
O
|
A:HOH952
|
2.4
|
7.2
|
1.0
|
|
OD1
|
A:ASP275
|
2.4
|
14.1
|
1.0
|
|
O
|
A:ASP283
|
2.5
|
11.6
|
1.0
|
|
OD2
|
A:ASP275
|
2.6
|
18.0
|
1.0
|
|
CG
|
A:ASP275
|
2.9
|
14.7
|
1.0
|
|
CG
|
A:ASN284
|
3.4
|
12.4
|
1.0
|
|
C
|
A:ASP283
|
3.4
|
12.6
|
1.0
|
|
CD
|
A:GLU253
|
3.5
|
12.2
|
1.0
|
|
CA
|
A:ASN284
|
3.9
|
11.4
|
1.0
|
|
CB
|
A:GLU253
|
4.1
|
11.6
|
1.0
|
|
CB
|
A:ASN284
|
4.2
|
10.4
|
1.0
|
|
N
|
A:ASN284
|
4.2
|
11.9
|
1.0
|
|
O
|
A:ASP275
|
4.2
|
12.7
|
1.0
|
|
O
|
A:HOH923
|
4.2
|
12.7
|
1.0
|
|
CG
|
A:GLU253
|
4.3
|
11.8
|
1.0
|
|
ND2
|
A:ASN284
|
4.4
|
8.3
|
1.0
|
|
CB
|
A:ASP275
|
4.4
|
12.3
|
1.0
|
|
CB
|
A:ASP283
|
4.4
|
14.9
|
1.0
|
|
NH1
|
A:ARG259
|
4.4
|
11.3
|
1.0
|
|
O
|
A:HOH956
|
4.4
|
12.8
|
1.0
|
|
CA
|
A:ASP283
|
4.4
|
13.4
|
1.0
|
|
OE1
|
A:GLU253
|
4.5
|
12.4
|
1.0
|
|
NE2
|
A:HIS365
|
4.6
|
8.7
|
1.0
|
|
CB
|
A:ALA362
|
4.6
|
15.8
|
1.0
|
|
CD2
|
A:HIS365
|
4.6
|
13.9
|
1.0
|
|
N
|
A:GLU363
|
4.7
|
17.9
|
1.0
|
|
O
|
A:GLU363
|
4.8
|
17.2
|
1.0
|
|
Calcium binding site 2 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 2 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca619
b:13.6
occ:1.00
|
O
|
A:ALA393
|
2.2
|
16.8
|
1.0
|
|
O
|
A:GLY391
|
2.2
|
11.8
|
1.0
|
|
O
|
A:SER374
|
2.3
|
14.2
|
1.0
|
|
OD2
|
A:ASP378
|
2.3
|
14.4
|
1.0
|
|
O
|
A:SER376
|
2.4
|
17.4
|
1.0
|
|
OD1
|
A:ASP396
|
2.5
|
17.8
|
1.0
|
|
OD2
|
A:ASP396
|
3.0
|
14.4
|
1.0
|
|
CG
|
A:ASP396
|
3.1
|
16.8
|
1.0
|
|
C
|
A:GLY391
|
3.4
|
12.4
|
1.0
|
|
C
|
A:SER374
|
3.4
|
14.6
|
1.0
|
|
C
|
A:ALA393
|
3.5
|
16.7
|
1.0
|
|
CG
|
A:ASP378
|
3.5
|
16.7
|
1.0
|
|
C
|
A:SER376
|
3.6
|
16.7
|
1.0
|
|
N
|
A:SER376
|
3.9
|
16.4
|
1.0
|
|
C
|
A:ARG392
|
4.0
|
14.9
|
1.0
|
|
O
|
A:ARG392
|
4.0
|
16.4
|
1.0
|
|
N
|
A:SER374
|
4.0
|
14.5
|
1.0
|
|
C
|
A:ASP375
|
4.1
|
16.1
|
1.0
|
|
N
|
A:ASP378
|
4.2
|
15.7
|
1.0
|
|
N
|
A:ALA393
|
4.2
|
15.2
|
1.0
|
|
CA
|
A:GLY391
|
4.2
|
11.9
|
1.0
|
|
N
|
A:ASP375
|
4.2
|
15.1
|
1.0
|
|
CA
|
A:GLY394
|
4.3
|
17.8
|
1.0
|
|
CB
|
A:ASP378
|
4.3
|
14.5
|
1.0
|
|
CA
|
A:ASP375
|
4.3
|
15.7
|
1.0
|
|
N
|
A:ARG392
|
4.3
|
12.0
|
1.0
|
|
OG
|
A:SER374
|
4.3
|
14.1
|
1.0
|
|
N
|
A:GLY394
|
4.3
|
16.9
|
1.0
|
|
OD1
|
A:ASP378
|
4.3
|
15.4
|
1.0
|
|
CA
|
A:SER374
|
4.3
|
14.2
|
1.0
|
|
CB
|
A:ARG392
|
4.4
|
12.9
|
1.0
|
|
CA
|
A:SER376
|
4.4
|
16.6
|
1.0
|
|
CA
|
A:ARG392
|
4.4
|
13.8
|
1.0
|
|
CA
|
A:ALA393
|
4.5
|
15.7
|
1.0
|
|
CB
|
A:ASP396
|
4.5
|
15.5
|
1.0
|
|
N
|
A:ASN377
|
4.6
|
16.4
|
1.0
|
|
CA
|
A:CA621
|
4.6
|
16.1
|
1.0
|
|
C
|
A:GLY394
|
4.6
|
18.8
|
1.0
|
|
O
|
A:GLY394
|
4.6
|
19.4
|
1.0
|
|
CA
|
A:ASN377
|
4.6
|
16.1
|
1.0
|
|
O
|
A:ASP375
|
4.7
|
16.4
|
1.0
|
|
C
|
A:ASN377
|
4.8
|
15.8
|
1.0
|
|
C
|
A:GLY373
|
4.8
|
14.6
|
1.0
|
|
CA
|
A:ASP378
|
4.9
|
15.1
|
1.0
|
|
CA
|
A:GLY373
|
5.0
|
13.5
|
1.0
|
|
CB
|
A:SER374
|
5.0
|
15.1
|
1.0
|
|
Calcium binding site 3 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 3 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca620
b:12.6
occ:1.00
|
O
|
A:GLY385
|
2.3
|
11.6
|
1.0
|
|
OD1
|
A:ASN405
|
2.3
|
10.0
|
1.0
|
|
OD2
|
A:ASP400
|
2.3
|
14.7
|
1.0
|
|
O
|
A:GLY383
|
2.4
|
14.7
|
1.0
|
|
O
|
A:GLY402
|
2.4
|
17.1
|
1.0
|
|
OD2
|
A:ASP387
|
2.5
|
10.5
|
1.0
|
|
OD1
|
A:ASP400
|
2.6
|
14.2
|
1.0
|
|
CG
|
A:ASP400
|
2.8
|
14.3
|
1.0
|
|
CG
|
A:ASN405
|
3.3
|
13.7
|
1.0
|
|
CG
|
A:ASP387
|
3.4
|
13.1
|
1.0
|
|
C
|
A:GLY385
|
3.5
|
12.8
|
1.0
|
|
C
|
A:GLY383
|
3.6
|
15.2
|
1.0
|
|
C
|
A:GLY402
|
3.6
|
17.2
|
1.0
|
|
ND2
|
A:ASN405
|
3.6
|
12.4
|
1.0
|
|
CB
|
A:ASP387
|
3.8
|
11.9
|
1.0
|
|
N
|
A:ASP387
|
4.1
|
11.5
|
1.0
|
|
N
|
A:GLY402
|
4.1
|
17.6
|
1.0
|
|
O
|
A:HOH951
|
4.1
|
16.4
|
1.0
|
|
N
|
A:GLY383
|
4.2
|
15.3
|
1.0
|
|
N
|
A:GLY385
|
4.2
|
14.1
|
1.0
|
|
C
|
A:SER384
|
4.3
|
15.4
|
1.0
|
|
CB
|
A:ASP400
|
4.3
|
14.8
|
1.0
|
|
N
|
A:ASN386
|
4.3
|
12.6
|
1.0
|
|
CA
|
A:ASN386
|
4.3
|
12.5
|
1.0
|
|
C
|
A:ASN386
|
4.4
|
12.1
|
1.0
|
|
OD1
|
A:ASP387
|
4.4
|
13.7
|
1.0
|
|
CA
|
A:GLY402
|
4.5
|
17.0
|
1.0
|
|
N
|
A:SER384
|
4.5
|
15.2
|
1.0
|
|
C
|
A:GLY382
|
4.5
|
15.3
|
1.0
|
|
CA
|
A:SER384
|
4.5
|
15.4
|
1.0
|
|
CA
|
A:GLY383
|
4.5
|
14.6
|
1.0
|
|
CA
|
A:GLY385
|
4.5
|
11.9
|
1.0
|
|
CA
|
A:ASP387
|
4.5
|
12.1
|
1.0
|
|
N
|
A:GLY403
|
4.6
|
16.4
|
1.0
|
|
N
|
A:GLY401
|
4.6
|
15.9
|
1.0
|
|
CB
|
A:ASN405
|
4.6
|
12.9
|
1.0
|
|
CA
|
A:GLY403
|
4.7
|
16.5
|
1.0
|
|
O
|
A:SER384
|
4.8
|
15.6
|
1.0
|
|
CA
|
A:GLY382
|
4.8
|
15.5
|
1.0
|
|
C
|
A:GLY403
|
4.9
|
16.4
|
1.0
|
|
O
|
A:TYR404
|
4.9
|
16.9
|
1.0
|
|
O
|
A:GLY382
|
5.0
|
15.7
|
1.0
|
|
C
|
A:GLY401
|
5.0
|
18.0
|
1.0
|
|
CA
|
A:ASP400
|
5.0
|
14.9
|
1.0
|
|
Calcium binding site 4 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 4 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca621
b:16.1
occ:1.00
|
O
|
A:ALA411
|
2.3
|
17.6
|
1.0
|
|
O
|
A:GLY394
|
2.3
|
19.4
|
1.0
|
|
OD2
|
A:ASP396
|
2.3
|
14.4
|
1.0
|
|
O
|
A:ARG392
|
2.4
|
16.4
|
1.0
|
|
OD1
|
A:ASN414
|
2.4
|
17.7
|
1.0
|
|
O
|
A:GLY409
|
2.5
|
19.0
|
1.0
|
|
CG
|
A:ASN414
|
3.4
|
17.1
|
1.0
|
|
CG
|
A:ASP396
|
3.4
|
16.8
|
1.0
|
|
C
|
A:GLY394
|
3.5
|
18.8
|
1.0
|
|
C
|
A:ALA411
|
3.5
|
17.2
|
1.0
|
|
C
|
A:ARG392
|
3.6
|
14.9
|
1.0
|
|
C
|
A:GLY409
|
3.6
|
17.9
|
1.0
|
|
ND2
|
A:ASN414
|
3.7
|
19.3
|
1.0
|
|
C
|
A:ALA393
|
3.7
|
16.7
|
1.0
|
|
O
|
A:ALA393
|
3.9
|
16.8
|
1.0
|
|
N
|
A:GLY394
|
4.0
|
16.9
|
1.0
|
|
C
|
A:GLY410
|
4.0
|
17.2
|
1.0
|
|
CA
|
A:ALA393
|
4.1
|
15.7
|
1.0
|
|
N
|
A:ALA411
|
4.2
|
17.2
|
1.0
|
|
CB
|
A:ASP396
|
4.2
|
15.5
|
1.0
|
|
O
|
A:GLY410
|
4.2
|
17.6
|
1.0
|
|
N
|
A:ASP396
|
4.2
|
17.4
|
1.0
|
|
C
|
A:GLY391
|
4.3
|
12.4
|
1.0
|
|
CA
|
A:GLY394
|
4.3
|
17.8
|
1.0
|
|
OD1
|
A:ASP396
|
4.3
|
17.8
|
1.0
|
|
N
|
A:ALA393
|
4.3
|
15.2
|
1.0
|
|
CA
|
A:GLY410
|
4.3
|
16.6
|
1.0
|
|
O
|
A:GLY391
|
4.4
|
11.8
|
1.0
|
|
N
|
A:GLY410
|
4.4
|
17.0
|
1.0
|
|
N
|
A:GLY412
|
4.4
|
18.0
|
1.0
|
|
N
|
A:ASN395
|
4.5
|
18.8
|
1.0
|
|
CA
|
A:ALA411
|
4.5
|
16.9
|
1.0
|
|
N
|
A:ARG392
|
4.5
|
12.0
|
1.0
|
|
CA
|
A:GLY412
|
4.5
|
18.5
|
1.0
|
|
CA
|
A:GLY391
|
4.6
|
11.9
|
1.0
|
|
CA
|
A:CA619
|
4.6
|
13.6
|
1.0
|
|
CA
|
A:GLY409
|
4.6
|
17.7
|
1.0
|
|
CA
|
A:ASN395
|
4.6
|
18.5
|
1.0
|
|
CB
|
A:ASN414
|
4.7
|
16.4
|
1.0
|
|
CA
|
A:ARG392
|
4.7
|
13.8
|
1.0
|
|
C
|
A:ASN395
|
4.8
|
17.7
|
1.0
|
|
CA
|
A:ASP396
|
4.8
|
16.1
|
1.0
|
|
C
|
A:GLY412
|
5.0
|
18.8
|
1.0
|
|
Calcium binding site 5 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 5 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca622
b:12.9
occ:1.00
|
O
|
A:GLY511
|
2.2
|
11.1
|
1.0
|
|
O
|
A:THR494
|
2.3
|
19.0
|
1.0
|
|
OD1
|
A:ASP516
|
2.3
|
14.3
|
1.0
|
|
O
|
A:GLY496
|
2.3
|
15.7
|
1.0
|
|
OD2
|
A:ASP498
|
2.3
|
18.0
|
1.0
|
|
O
|
A:ASP513
|
2.5
|
14.2
|
1.0
|
|
OD2
|
A:ASP516
|
2.9
|
17.9
|
1.0
|
|
CG
|
A:ASP516
|
3.0
|
14.9
|
1.0
|
|
C
|
A:GLY511
|
3.4
|
12.5
|
1.0
|
|
CG
|
A:ASP498
|
3.4
|
16.4
|
1.0
|
|
C
|
A:THR494
|
3.4
|
18.8
|
1.0
|
|
C
|
A:GLY496
|
3.6
|
15.9
|
1.0
|
|
C
|
A:ASP513
|
3.6
|
13.4
|
1.0
|
|
N
|
A:THR494
|
3.8
|
18.5
|
1.0
|
|
C
|
A:LEU512
|
3.9
|
20.0
|
1.0
|
|
O
|
A:LEU512
|
3.9
|
11.8
|
1.0
|
|
OD1
|
A:ASP498
|
4.1
|
21.8
|
1.0
|
|
N
|
A:ASP513
|
4.1
|
12.3
|
1.0
|
|
N
|
A:GLY496
|
4.1
|
17.7
|
1.0
|
|
N
|
A:ASP498
|
4.2
|
16.5
|
1.0
|
|
N
|
A:LEU512
|
4.2
|
20.0
|
1.0
|
|
CA
|
A:GLY511
|
4.3
|
11.5
|
1.0
|
|
CA
|
A:LEU512
|
4.3
|
20.0
|
1.0
|
|
C
|
A:ASN495
|
4.3
|
17.9
|
1.0
|
|
CB
|
A:ASP498
|
4.3
|
16.5
|
1.0
|
|
CA
|
A:THR494
|
4.3
|
18.6
|
1.0
|
|
N
|
A:ASN495
|
4.3
|
18.4
|
1.0
|
|
CA
|
A:ASN495
|
4.4
|
18.8
|
1.0
|
|
CB
|
A:ASP516
|
4.4
|
11.7
|
1.0
|
|
O
|
A:GLY514
|
4.4
|
10.2
|
1.0
|
|
CB
|
A:LEU512
|
4.4
|
20.0
|
1.0
|
|
N
|
A:ALA497
|
4.5
|
14.6
|
1.0
|
|
CA
|
A:GLY496
|
4.5
|
16.4
|
1.0
|
|
CA
|
A:ASP513
|
4.5
|
13.8
|
1.0
|
|
N
|
A:GLY514
|
4.5
|
12.4
|
1.0
|
|
OG1
|
A:THR494
|
4.5
|
17.8
|
1.0
|
|
CA
|
A:GLY514
|
4.5
|
11.4
|
1.0
|
|
CA
|
A:CA623
|
4.5
|
9.4
|
1.0
|
|
CA
|
A:ALA497
|
4.6
|
15.2
|
1.0
|
|
C
|
A:GLY514
|
4.6
|
11.3
|
1.0
|
|
C
|
A:ALA497
|
4.7
|
16.8
|
1.0
|
|
C
|
A:GLY493
|
4.8
|
18.4
|
1.0
|
|
O
|
A:ASN495
|
4.9
|
18.4
|
1.0
|
|
CA
|
A:ASP498
|
4.9
|
16.0
|
1.0
|
|
CA
|
A:GLY493
|
4.9
|
18.5
|
1.0
|
|
Calcium binding site 6 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 6 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca623
b:9.4
occ:1.00
|
O
|
A:GLY529
|
2.3
|
11.3
|
1.0
|
|
O
|
A:GLY514
|
2.3
|
10.2
|
1.0
|
|
OD2
|
A:ASP516
|
2.3
|
17.9
|
1.0
|
|
O
|
A:LEU512
|
2.3
|
11.8
|
1.0
|
|
OD1
|
A:ASP534
|
2.3
|
13.8
|
1.0
|
|
O
|
A:ALA531
|
2.4
|
12.3
|
1.0
|
|
OD2
|
A:ASP534
|
3.0
|
11.8
|
1.0
|
|
CG
|
A:ASP534
|
3.0
|
13.4
|
1.0
|
|
CG
|
A:ASP516
|
3.4
|
14.9
|
1.0
|
|
C
|
A:GLY529
|
3.4
|
10.5
|
1.0
|
|
C
|
A:LEU512
|
3.5
|
20.0
|
1.0
|
|
C
|
A:GLY514
|
3.5
|
11.3
|
1.0
|
|
C
|
A:ALA531
|
3.6
|
10.9
|
1.0
|
|
C
|
A:ASP513
|
3.8
|
13.4
|
1.0
|
|
C
|
A:GLY530
|
4.0
|
9.5
|
1.0
|
|
N
|
A:GLY514
|
4.0
|
12.4
|
1.0
|
|
O
|
A:ASP513
|
4.0
|
14.2
|
1.0
|
|
O
|
A:GLY530
|
4.1
|
8.3
|
1.0
|
|
CB
|
A:ASP516
|
4.2
|
11.7
|
1.0
|
|
N
|
A:ASP516
|
4.2
|
12.3
|
1.0
|
|
C
|
A:GLY511
|
4.2
|
12.5
|
1.0
|
|
CA
|
A:ASP513
|
4.2
|
13.8
|
1.0
|
|
OD1
|
A:ASP516
|
4.2
|
14.3
|
1.0
|
|
O
|
A:GLY511
|
4.3
|
11.1
|
1.0
|
|
CA
|
A:GLY532
|
4.3
|
11.2
|
1.0
|
|
N
|
A:LEU512
|
4.3
|
20.0
|
1.0
|
|
N
|
A:GLY530
|
4.3
|
9.0
|
1.0
|
|
N
|
A:ALA531
|
4.3
|
9.7
|
1.0
|
|
CA
|
A:GLY530
|
4.3
|
8.6
|
1.0
|
|
CA
|
A:GLY514
|
4.3
|
11.4
|
1.0
|
|
N
|
A:ASP513
|
4.3
|
12.3
|
1.0
|
|
N
|
A:GLY532
|
4.4
|
11.7
|
1.0
|
|
CA
|
A:GLY529
|
4.4
|
10.2
|
1.0
|
|
CA
|
A:LEU512
|
4.4
|
20.0
|
1.0
|
|
CB
|
A:ASP534
|
4.5
|
11.0
|
1.0
|
|
N
|
A:ASN515
|
4.5
|
11.0
|
1.0
|
|
CA
|
A:CA622
|
4.5
|
12.9
|
1.0
|
|
CA
|
A:GLY511
|
4.6
|
11.5
|
1.0
|
|
C
|
A:GLY532
|
4.6
|
11.7
|
1.0
|
|
CA
|
A:ALA531
|
4.6
|
10.7
|
1.0
|
|
CA
|
A:CA625
|
4.7
|
11.4
|
1.0
|
|
CA
|
A:ASN515
|
4.7
|
11.7
|
1.0
|
|
O
|
A:GLY532
|
4.8
|
10.4
|
1.0
|
|
CA
|
A:ASP516
|
4.8
|
11.9
|
1.0
|
|
C
|
A:ASN515
|
4.9
|
12.5
|
1.0
|
|
Calcium binding site 7 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 7 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca624
b:13.6
occ:1.00
|
OD2
|
A:ASP525
|
2.3
|
12.7
|
1.0
|
|
O
|
A:GLY540
|
2.3
|
14.3
|
1.0
|
|
O
|
A:GLY523
|
2.4
|
14.4
|
1.0
|
|
O
|
A:GLY521
|
2.4
|
14.3
|
1.0
|
|
OD1
|
A:ASP543
|
2.5
|
10.4
|
1.0
|
|
OD2
|
A:ASP543
|
2.5
|
13.8
|
1.0
|
|
O
|
A:SER538
|
2.6
|
9.5
|
1.0
|
|
CG
|
A:ASP543
|
2.9
|
12.2
|
1.0
|
|
CG
|
A:ASP525
|
3.4
|
15.2
|
1.0
|
|
C
|
A:GLY540
|
3.5
|
12.3
|
1.0
|
|
C
|
A:GLY521
|
3.6
|
14.4
|
1.0
|
|
C
|
A:GLY523
|
3.6
|
14.1
|
1.0
|
|
C
|
A:SER538
|
3.7
|
10.0
|
1.0
|
|
N
|
A:GLY540
|
3.8
|
12.6
|
1.0
|
|
N
|
A:GLY521
|
3.9
|
13.4
|
1.0
|
|
OG
|
A:SER538
|
4.0
|
8.1
|
1.0
|
|
N
|
A:ASP525
|
4.2
|
13.3
|
1.0
|
|
C
|
A:GLY539
|
4.2
|
11.7
|
1.0
|
|
CB
|
A:ASP525
|
4.2
|
12.9
|
1.0
|
|
OD1
|
A:ASP525
|
4.2
|
16.5
|
1.0
|
|
CA
|
A:GLY540
|
4.3
|
12.2
|
1.0
|
|
N
|
A:GLY523
|
4.3
|
13.8
|
1.0
|
|
O
|
A:HOH632
|
4.4
|
9.4
|
1.0
|
|
CA
|
A:GLY521
|
4.4
|
13.6
|
1.0
|
|
C
|
A:VAL522
|
4.4
|
14.0
|
1.0
|
|
C
|
A:GLY520
|
4.4
|
12.1
|
1.0
|
|
N
|
A:GLY541
|
4.4
|
12.4
|
1.0
|
|
CB
|
A:ASP543
|
4.4
|
10.7
|
1.0
|
|
CA
|
A:SER538
|
4.5
|
9.7
|
1.0
|
|
CA
|
A:GLY520
|
4.5
|
12.6
|
1.0
|
|
CA
|
A:GLY541
|
4.5
|
10.8
|
1.0
|
|
CA
|
A:GLY523
|
4.5
|
14.0
|
1.0
|
|
N
|
A:GLY539
|
4.5
|
10.2
|
1.0
|
|
CA
|
A:GLY539
|
4.6
|
11.9
|
1.0
|
|
N
|
A:ASN524
|
4.6
|
13.3
|
1.0
|
|
N
|
A:VAL522
|
4.6
|
14.2
|
1.0
|
|
O
|
A:VAL522
|
4.7
|
14.9
|
1.0
|
|
O
|
A:GLY539
|
4.7
|
13.5
|
1.0
|
|
CA
|
A:ASN524
|
4.7
|
13.4
|
1.0
|
|
CZ
|
A:PHE527
|
4.8
|
8.1
|
1.0
|
|
CE2
|
A:PHE527
|
4.8
|
10.2
|
1.0
|
|
CA
|
A:VAL522
|
4.8
|
14.1
|
1.0
|
|
CA
|
A:ASP525
|
4.9
|
13.1
|
1.0
|
|
CB
|
A:SER538
|
4.9
|
8.9
|
1.0
|
|
C
|
A:ASN524
|
4.9
|
13.2
|
1.0
|
|
C
|
A:GLY541
|
5.0
|
12.0
|
1.0
|
|
Calcium binding site 8 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 8 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca625
b:11.4
occ:1.00
|
O
|
A:GLY530
|
2.2
|
8.3
|
1.0
|
|
O
|
A:PHE551
|
2.3
|
11.9
|
1.0
|
|
OD2
|
A:ASP534
|
2.3
|
11.8
|
1.0
|
|
O
|
A:GLY532
|
2.5
|
10.4
|
1.0
|
|
OD1
|
A:ASP554
|
2.5
|
14.5
|
1.0
|
|
CG
|
A:ASP554
|
3.3
|
13.2
|
1.0
|
|
OD2
|
A:ASP554
|
3.3
|
16.1
|
1.0
|
|
C
|
A:PHE551
|
3.4
|
11.8
|
1.0
|
|
C
|
A:GLY530
|
3.5
|
9.5
|
1.0
|
|
CG
|
A:ASP534
|
3.5
|
13.4
|
1.0
|
|
C
|
A:GLY532
|
3.5
|
11.7
|
1.0
|
|
C
|
A:ALA531
|
3.9
|
10.9
|
1.0
|
|
N
|
A:GLY532
|
4.0
|
11.7
|
1.0
|
|
O
|
A:ALA531
|
4.0
|
12.3
|
1.0
|
|
CB
|
A:ASP534
|
4.1
|
11.0
|
1.0
|
|
N
|
A:ASP534
|
4.1
|
11.3
|
1.0
|
|
C
|
A:GLY529
|
4.2
|
10.5
|
1.0
|
|
CA
|
A:PHE551
|
4.2
|
11.3
|
1.0
|
|
N
|
A:GLY530
|
4.2
|
9.0
|
1.0
|
|
CA
|
A:GLY532
|
4.3
|
11.2
|
1.0
|
|
N
|
A:ALA531
|
4.4
|
9.7
|
1.0
|
|
CB
|
A:PHE551
|
4.4
|
11.3
|
1.0
|
|
N
|
A:GLY552
|
4.4
|
11.8
|
1.0
|
|
CA
|
A:ALA531
|
4.4
|
10.7
|
1.0
|
|
OD1
|
A:ASP534
|
4.4
|
13.8
|
1.0
|
|
N
|
A:ASN533
|
4.4
|
11.9
|
1.0
|
|
O
|
A:GLY529
|
4.4
|
11.3
|
1.0
|
|
CA
|
A:GLY530
|
4.4
|
8.6
|
1.0
|
|
CA
|
A:GLY552
|
4.5
|
10.9
|
1.0
|
|
CA
|
A:GLY529
|
4.5
|
10.2
|
1.0
|
|
CA
|
A:ASN533
|
4.5
|
13.2
|
1.0
|
|
CA
|
A:CA623
|
4.7
|
9.4
|
1.0
|
|
CB
|
A:ASP554
|
4.7
|
11.4
|
1.0
|
|
C
|
A:ASN533
|
4.8
|
12.5
|
1.0
|
|
CA
|
A:ASP534
|
4.8
|
11.0
|
1.0
|
|
C
|
A:GLY552
|
4.9
|
11.5
|
1.0
|
|
Calcium binding site 9 out
of 9 in 2zj6
Go back to
Calcium Binding Sites List in 2zj6
Calcium binding site 9 out
of 9 in the Crystal Structure of D337A Mutant of Pseudomonas Sp. MIS38 Lipase
 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 D337A Mutant of Pseudomonas Sp. MIS38 Lipase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca626
b:12.1
occ:1.00
|
OG1
|
A:THR560
|
2.4
|
12.9
|
1.0
|
|
O
|
A:HOH737
|
2.4
|
15.8
|
1.0
|
|
O
|
A:HOH861
|
2.4
|
15.6
|
1.0
|
|
OD1
|
A:ASN562
|
2.4
|
12.5
|
1.0
|
|
O
|
A:GLY541
|
2.5
|
11.1
|
1.0
|
|
OD1
|
A:ASP563
|
2.5
|
13.9
|
1.0
|
|
OD2
|
A:ASP563
|
2.6
|
15.4
|
1.0
|
|
CG
|
A:ASP563
|
2.8
|
16.1
|
1.0
|
|
CG
|
A:ASN562
|
3.5
|
13.1
|
1.0
|
|
CB
|
A:THR560
|
3.6
|
13.3
|
1.0
|
|
C
|
A:GLY541
|
3.7
|
12.0
|
1.0
|
|
ND2
|
A:ASN562
|
4.0
|
14.5
|
1.0
|
|
CG2
|
A:THR560
|
4.0
|
13.9
|
1.0
|
|
N
|
A:THR560
|
4.2
|
11.8
|
1.0
|
|
CB
|
A:ASP563
|
4.2
|
15.2
|
1.0
|
|
N
|
A:ASP563
|
4.3
|
14.7
|
1.0
|
|
CA
|
A:THR560
|
4.3
|
13.8
|
1.0
|
|
OG
|
A:SER538
|
4.4
|
8.1
|
1.0
|
|
N
|
A:GLY541
|
4.5
|
12.4
|
1.0
|
|
CA
|
A:ALA542
|
4.6
|
12.6
|
1.0
|
|
N
|
A:ALA542
|
4.6
|
12.2
|
1.0
|
|
C
|
A:ASN562
|
4.6
|
13.8
|
1.0
|
|
C
|
A:GLY540
|
4.6
|
12.3
|
1.0
|
|
C
|
A:THR560
|
4.7
|
14.7
|
1.0
|
|
CA
|
A:GLY541
|
4.7
|
10.8
|
1.0
|
|
O
|
A:GLY558
|
4.7
|
14.4
|
1.0
|
|
CA
|
A:ASP563
|
4.7
|
15.3
|
1.0
|
|
O
|
A:THR560
|
4.8
|
14.8
|
1.0
|
|
N
|
A:ASP543
|
4.8
|
12.4
|
1.0
|
|
O
|
A:HOH932
|
4.8
|
23.3
|
1.0
|
|
N
|
A:ASN562
|
4.8
|
13.3
|
1.0
|
|
CB
|
A:ASN562
|
4.8
|
12.9
|
1.0
|
|
O
|
A:HOH806
|
4.9
|
27.6
|
1.0
|
|
O
|
A:GLY540
|
4.9
|
14.3
|
1.0
|
|
CA
|
A:ASN562
|
4.9
|
13.4
|
1.0
|
|
Reference:
K.Kuwahara,
C.Angkawidjaja,
H.Matsumura,
Y.Koga,
K.Takano,
S.Kanaya.
Importance of the CA2+-Binding Sites in the N-Catalytic Domain of A Family I.3 Lipase For Activity and Stability Protein Eng.Des.Sel. V. 21 737 2008.
ISSN: ISSN 1741-0126
PubMed: 18987131
DOI: 10.1093/PROTEIN/GZN057
Page generated: Sat Dec 12 04:01:41 2020
|
