Calcium in PDB 2qub: Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
Enzymatic activity of Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
All present enzymatic activity of Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens:
3.1.1.3;
Protein crystallography data
The structure of Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens, PDB code: 2qub
was solved by
R.Meier,
U.Baumann,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
24.93 /
1.80
|
Space group
|
H 3
|
Cell size a, b, c (Å), α, β, γ (°)
|
202.401,
202.401,
317.731,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
17.1 /
20
|
Calcium Binding Sites:
Calcium binding site 1 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 1 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca614
b:23.1
occ:1.00
|
O
|
A:ALA510
|
2.3
|
19.4
|
1.0
|
O
|
A:GLY491
|
2.3
|
22.1
|
1.0
|
OD1
|
A:ASP513
|
2.3
|
20.2
|
1.0
|
O
|
A:GLY508
|
2.3
|
17.0
|
1.0
|
OD2
|
A:ASP495
|
2.3
|
18.0
|
1.0
|
O
|
A:GLY493
|
2.3
|
19.2
|
1.0
|
CG
|
A:ASP513
|
3.0
|
20.0
|
1.0
|
OD2
|
A:ASP513
|
3.1
|
16.7
|
1.0
|
CG
|
A:ASP495
|
3.3
|
22.7
|
1.0
|
C
|
A:GLY491
|
3.5
|
23.4
|
1.0
|
C
|
A:GLY508
|
3.5
|
18.8
|
1.0
|
C
|
A:ALA510
|
3.5
|
20.9
|
1.0
|
C
|
A:GLY493
|
3.6
|
20.8
|
1.0
|
N
|
A:GLY491
|
3.9
|
22.4
|
1.0
|
C
|
A:ASN509
|
4.0
|
20.4
|
1.0
|
N
|
A:GLY493
|
4.0
|
23.2
|
1.0
|
O
|
A:ASN509
|
4.0
|
22.7
|
1.0
|
CB
|
A:ASP495
|
4.1
|
20.2
|
1.0
|
N
|
A:ALA510
|
4.1
|
22.1
|
1.0
|
C
|
A:ASP492
|
4.1
|
24.5
|
1.0
|
OD1
|
A:ASP495
|
4.2
|
27.6
|
1.0
|
N
|
A:ASP495
|
4.2
|
20.4
|
1.0
|
CA
|
A:GLY491
|
4.3
|
22.6
|
1.0
|
CA
|
A:GLY493
|
4.3
|
21.9
|
1.0
|
CA
|
A:GLY511
|
4.4
|
18.9
|
1.0
|
CA
|
A:GLY508
|
4.4
|
16.6
|
1.0
|
N
|
A:GLY511
|
4.4
|
20.2
|
1.0
|
N
|
A:ASN509
|
4.4
|
18.3
|
1.0
|
N
|
A:ASP492
|
4.4
|
22.6
|
1.0
|
CA
|
A:ALA510
|
4.4
|
19.3
|
1.0
|
CB
|
A:ASP513
|
4.5
|
17.9
|
1.0
|
CA
|
A:ASN509
|
4.5
|
19.9
|
1.0
|
CB
|
A:ASN509
|
4.5
|
19.3
|
1.0
|
CA
|
A:ASP492
|
4.5
|
24.6
|
1.0
|
N
|
A:ASP494
|
4.6
|
18.6
|
1.0
|
O
|
A:ASP492
|
4.6
|
24.4
|
1.0
|
C
|
A:GLY490
|
4.6
|
22.2
|
1.0
|
C
|
A:GLY511
|
4.6
|
18.2
|
1.0
|
O
|
A:GLY511
|
4.7
|
18.9
|
1.0
|
CA
|
A:ASP494
|
4.7
|
19.4
|
1.0
|
CA
|
A:CA616
|
4.8
|
21.5
|
1.0
|
CA
|
A:ASP495
|
4.8
|
21.4
|
1.0
|
CA
|
A:GLY490
|
4.8
|
21.8
|
1.0
|
C
|
A:ASP494
|
4.9
|
19.7
|
1.0
|
|
Calcium binding site 2 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 2 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca615
b:20.7
occ:1.00
|
O
|
A:HOH705
|
2.3
|
19.8
|
1.0
|
OD2
|
A:ASP532
|
2.3
|
20.1
|
1.0
|
O
|
A:PHE549
|
2.3
|
19.3
|
1.0
|
O
|
A:GLY530
|
2.4
|
19.0
|
1.0
|
OD1
|
A:ASP552
|
2.4
|
21.7
|
1.0
|
O
|
A:GLY528
|
2.4
|
22.9
|
1.0
|
CG
|
A:ASP552
|
3.2
|
25.6
|
1.0
|
OD2
|
A:ASP552
|
3.3
|
30.8
|
1.0
|
CG
|
A:ASP532
|
3.4
|
19.9
|
1.0
|
C
|
A:PHE549
|
3.5
|
20.9
|
1.0
|
C
|
A:GLY530
|
3.6
|
17.9
|
1.0
|
C
|
A:GLY528
|
3.6
|
22.7
|
1.0
|
C
|
A:SER529
|
3.9
|
18.6
|
1.0
|
O
|
A:SER529
|
3.9
|
17.8
|
1.0
|
CB
|
A:ASP532
|
4.1
|
19.0
|
1.0
|
N
|
A:ASP532
|
4.1
|
19.1
|
1.0
|
N
|
A:GLY528
|
4.1
|
20.5
|
1.0
|
C
|
A:GLY527
|
4.1
|
20.0
|
1.0
|
N
|
A:GLY530
|
4.2
|
19.0
|
1.0
|
CA
|
A:PHE549
|
4.4
|
19.6
|
1.0
|
OD1
|
A:ASP532
|
4.4
|
19.5
|
1.0
|
CA
|
A:SER529
|
4.4
|
20.7
|
1.0
|
N
|
A:GLY550
|
4.4
|
19.4
|
1.0
|
O
|
A:GLY527
|
4.4
|
19.1
|
1.0
|
CA
|
A:GLY530
|
4.4
|
17.3
|
1.0
|
CA
|
A:GLY550
|
4.5
|
20.6
|
1.0
|
N
|
A:SER529
|
4.5
|
21.1
|
1.0
|
N
|
A:ASP531
|
4.5
|
17.9
|
1.0
|
CA
|
A:GLY528
|
4.5
|
21.0
|
1.0
|
CB
|
A:PHE549
|
4.5
|
19.6
|
1.0
|
CA
|
A:GLY527
|
4.5
|
20.4
|
1.0
|
CA
|
A:ASP531
|
4.6
|
19.8
|
1.0
|
CB
|
A:ASP552
|
4.7
|
20.3
|
1.0
|
C
|
A:GLY550
|
4.7
|
20.1
|
1.0
|
CA
|
A:CA616
|
4.7
|
21.5
|
1.0
|
CA
|
A:ASP532
|
4.8
|
19.1
|
1.0
|
C
|
A:ASP531
|
4.8
|
18.9
|
1.0
|
O
|
A:HOH661
|
4.8
|
17.6
|
1.0
|
N
|
A:ARG551
|
4.9
|
21.2
|
1.0
|
CD1
|
A:PHE549
|
4.9
|
20.1
|
1.0
|
|
Calcium binding site 3 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 3 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca616
b:21.5
occ:1.00
|
OD2
|
A:ASP513
|
2.3
|
16.7
|
1.0
|
O
|
A:ASN509
|
2.3
|
22.7
|
1.0
|
OD1
|
A:ASP532
|
2.3
|
19.5
|
1.0
|
O
|
A:SER529
|
2.4
|
17.8
|
1.0
|
O
|
A:GLY527
|
2.4
|
19.1
|
1.0
|
O
|
A:GLY511
|
2.4
|
18.9
|
1.0
|
OD2
|
A:ASP532
|
3.0
|
20.1
|
1.0
|
CG
|
A:ASP532
|
3.0
|
19.9
|
1.0
|
CG
|
A:ASP513
|
3.5
|
20.0
|
1.0
|
C
|
A:GLY527
|
3.5
|
20.0
|
1.0
|
C
|
A:GLY511
|
3.6
|
18.2
|
1.0
|
C
|
A:ASN509
|
3.6
|
20.4
|
1.0
|
C
|
A:SER529
|
3.6
|
18.6
|
1.0
|
C
|
A:ALA510
|
3.9
|
20.9
|
1.0
|
C
|
A:GLY528
|
4.0
|
22.7
|
1.0
|
O
|
A:ALA510
|
4.0
|
19.4
|
1.0
|
N
|
A:GLY511
|
4.0
|
20.2
|
1.0
|
O
|
A:GLY528
|
4.1
|
22.9
|
1.0
|
N
|
A:ASP513
|
4.2
|
18.4
|
1.0
|
CB
|
A:ASP513
|
4.2
|
17.9
|
1.0
|
N
|
A:SER529
|
4.2
|
21.1
|
1.0
|
C
|
A:GLY508
|
4.2
|
18.8
|
1.0
|
CA
|
A:ALA510
|
4.3
|
19.3
|
1.0
|
CA
|
A:GLY528
|
4.3
|
21.0
|
1.0
|
N
|
A:GLY528
|
4.3
|
20.5
|
1.0
|
N
|
A:ASN509
|
4.3
|
18.3
|
1.0
|
CA
|
A:GLY511
|
4.4
|
18.9
|
1.0
|
N
|
A:ALA510
|
4.4
|
22.1
|
1.0
|
OD1
|
A:ASP513
|
4.4
|
20.2
|
1.0
|
CA
|
A:GLY530
|
4.4
|
17.3
|
1.0
|
N
|
A:GLY530
|
4.4
|
19.0
|
1.0
|
O
|
A:GLY508
|
4.5
|
17.0
|
1.0
|
CA
|
A:GLY527
|
4.5
|
20.4
|
1.0
|
CB
|
A:ASP532
|
4.5
|
19.0
|
1.0
|
C
|
A:GLY530
|
4.5
|
17.9
|
1.0
|
N
|
A:ASN512
|
4.5
|
18.4
|
1.0
|
O
|
A:GLY530
|
4.6
|
19.0
|
1.0
|
CA
|
A:ASN509
|
4.6
|
19.9
|
1.0
|
CA
|
A:GLY508
|
4.6
|
16.6
|
1.0
|
CA
|
A:SER529
|
4.6
|
20.7
|
1.0
|
CA
|
A:ASN512
|
4.7
|
18.5
|
1.0
|
CA
|
A:CA615
|
4.7
|
20.7
|
1.0
|
CA
|
A:CA614
|
4.8
|
23.1
|
1.0
|
CA
|
A:ASP513
|
4.9
|
20.4
|
1.0
|
C
|
A:ASN512
|
4.9
|
18.7
|
1.0
|
|
Calcium binding site 4 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 4 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca617
b:14.8
occ:1.00
|
O
|
A:GLY403
|
2.3
|
19.1
|
1.0
|
O
|
A:GLY384
|
2.4
|
20.8
|
1.0
|
OD2
|
A:ASP388
|
2.4
|
21.9
|
1.0
|
OD1
|
A:ASN406
|
2.4
|
21.4
|
1.0
|
O
|
A:GLY386
|
2.4
|
19.9
|
1.0
|
OD2
|
A:ASP401
|
2.4
|
19.2
|
1.0
|
OD1
|
A:ASP401
|
2.4
|
23.7
|
1.0
|
CG
|
A:ASP401
|
2.8
|
20.9
|
1.0
|
CG
|
A:ASN406
|
3.3
|
22.4
|
1.0
|
CG
|
A:ASP388
|
3.4
|
26.6
|
1.0
|
C
|
A:GLY384
|
3.5
|
20.9
|
1.0
|
C
|
A:GLY403
|
3.5
|
18.8
|
1.0
|
C
|
A:GLY386
|
3.6
|
20.5
|
1.0
|
ND2
|
A:ASN406
|
3.6
|
19.8
|
1.0
|
CB
|
A:ASP388
|
3.8
|
22.1
|
1.0
|
N
|
A:GLY403
|
3.9
|
21.0
|
1.0
|
N
|
A:GLY384
|
4.1
|
20.8
|
1.0
|
N
|
A:ASP388
|
4.1
|
19.6
|
1.0
|
N
|
A:GLY386
|
4.2
|
21.5
|
1.0
|
C
|
A:LYS385
|
4.2
|
22.2
|
1.0
|
O
|
A:HOH653
|
4.2
|
19.9
|
1.0
|
CB
|
A:ASP401
|
4.3
|
19.2
|
1.0
|
CA
|
A:GLY403
|
4.3
|
20.1
|
1.0
|
C
|
A:GLY383
|
4.4
|
19.2
|
1.0
|
CA
|
A:GLY384
|
4.4
|
21.5
|
1.0
|
N
|
A:LYS385
|
4.4
|
21.6
|
1.0
|
OD1
|
A:ASP388
|
4.4
|
26.6
|
1.0
|
N
|
A:ASN387
|
4.5
|
19.7
|
1.0
|
CA
|
A:ASN387
|
4.5
|
21.5
|
1.0
|
C
|
A:ASN387
|
4.5
|
20.2
|
1.0
|
CA
|
A:GLY386
|
4.5
|
21.4
|
1.0
|
N
|
A:GLY404
|
4.5
|
19.1
|
1.0
|
CA
|
A:LYS385
|
4.6
|
22.6
|
1.0
|
N
|
A:ALA402
|
4.6
|
21.9
|
1.0
|
CA
|
A:ASP388
|
4.6
|
21.7
|
1.0
|
O
|
A:LYS385
|
4.6
|
20.6
|
1.0
|
CB
|
A:ASN406
|
4.6
|
19.4
|
1.0
|
CA
|
A:GLY404
|
4.7
|
19.7
|
1.0
|
CA
|
A:GLY383
|
4.8
|
20.4
|
1.0
|
O
|
A:GLY383
|
4.8
|
21.1
|
1.0
|
C
|
A:GLY404
|
4.9
|
20.1
|
1.0
|
O
|
A:HOH688
|
5.0
|
22.0
|
1.0
|
|
Calcium binding site 5 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 5 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca618
b:16.7
occ:1.00
|
O
|
A:GLY410
|
2.3
|
21.9
|
1.0
|
O
|
A:LYS412
|
2.3
|
19.9
|
1.0
|
O
|
A:GLY395
|
2.4
|
20.6
|
1.0
|
O
|
A:ARG393
|
2.4
|
20.0
|
1.0
|
OD1
|
A:ASN415
|
2.4
|
19.9
|
1.0
|
OD2
|
A:ASP397
|
2.4
|
21.2
|
1.0
|
CG
|
A:ASN415
|
3.3
|
21.3
|
1.0
|
CG
|
A:ASP397
|
3.4
|
19.2
|
1.0
|
C
|
A:GLY410
|
3.5
|
22.4
|
1.0
|
C
|
A:GLY395
|
3.6
|
21.6
|
1.0
|
ND2
|
A:ASN415
|
3.6
|
19.1
|
1.0
|
C
|
A:LYS412
|
3.6
|
21.7
|
1.0
|
C
|
A:ARG393
|
3.6
|
22.1
|
1.0
|
C
|
A:ASP394
|
3.8
|
20.2
|
1.0
|
O
|
A:ASP394
|
3.8
|
19.2
|
1.0
|
C
|
A:GLY411
|
4.0
|
23.1
|
1.0
|
N
|
A:GLY395
|
4.0
|
21.2
|
1.0
|
CB
|
A:ASP397
|
4.0
|
19.5
|
1.0
|
N
|
A:LYS412
|
4.2
|
23.3
|
1.0
|
O
|
A:GLY411
|
4.2
|
21.6
|
1.0
|
CA
|
A:GLY411
|
4.2
|
23.4
|
1.0
|
CA
|
A:ASP394
|
4.2
|
20.9
|
1.0
|
N
|
A:ASP397
|
4.3
|
19.5
|
1.0
|
C
|
A:GLY392
|
4.3
|
21.0
|
1.0
|
N
|
A:GLY411
|
4.3
|
20.6
|
1.0
|
O
|
A:GLY392
|
4.3
|
21.2
|
1.0
|
CA
|
A:GLY395
|
4.4
|
22.1
|
1.0
|
N
|
A:ASP394
|
4.4
|
20.7
|
1.0
|
OD1
|
A:ASP397
|
4.4
|
20.4
|
1.0
|
N
|
A:ARG393
|
4.5
|
18.2
|
1.0
|
CA
|
A:CA619
|
4.5
|
16.0
|
1.0
|
N
|
A:GLY413
|
4.5
|
22.1
|
1.0
|
CA
|
A:LYS412
|
4.5
|
21.5
|
1.0
|
CA
|
A:GLY413
|
4.6
|
22.4
|
1.0
|
N
|
A:ASP396
|
4.6
|
21.7
|
1.0
|
CA
|
A:GLY410
|
4.6
|
21.3
|
1.0
|
CA
|
A:GLY392
|
4.6
|
21.1
|
1.0
|
CA
|
A:ARG393
|
4.7
|
20.9
|
1.0
|
CB
|
A:ASN415
|
4.7
|
19.5
|
1.0
|
CA
|
A:ASP396
|
4.8
|
19.9
|
1.0
|
CA
|
A:ASP397
|
4.8
|
18.4
|
1.0
|
C
|
A:ASP396
|
4.9
|
20.3
|
1.0
|
|
Calcium binding site 6 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 6 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca619
b:16.0
occ:1.00
|
O
|
A:GLY392
|
2.3
|
21.2
|
1.0
|
O
|
A:ASP394
|
2.3
|
19.2
|
1.0
|
OD2
|
A:ASP379
|
2.3
|
20.1
|
1.0
|
OD1
|
A:ASP397
|
2.4
|
20.4
|
1.0
|
O
|
A:GLY377
|
2.4
|
20.9
|
1.0
|
O
|
A:SER375
|
2.4
|
21.0
|
1.0
|
OD2
|
A:ASP397
|
2.6
|
21.2
|
1.0
|
CG
|
A:ASP397
|
2.8
|
19.2
|
1.0
|
CG
|
A:ASP379
|
3.4
|
23.2
|
1.0
|
C
|
A:GLY392
|
3.5
|
21.0
|
1.0
|
C
|
A:ASP394
|
3.6
|
20.2
|
1.0
|
C
|
A:SER375
|
3.6
|
22.2
|
1.0
|
C
|
A:GLY377
|
3.6
|
21.6
|
1.0
|
O
|
A:ARG393
|
4.0
|
20.0
|
1.0
|
C
|
A:ARG393
|
4.0
|
22.1
|
1.0
|
N
|
A:GLY377
|
4.1
|
21.7
|
1.0
|
N
|
A:SER375
|
4.1
|
22.1
|
1.0
|
CB
|
A:ASP379
|
4.2
|
19.8
|
1.0
|
N
|
A:ASP379
|
4.2
|
19.6
|
1.0
|
OD1
|
A:ASP379
|
4.2
|
21.7
|
1.0
|
C
|
A:ASP376
|
4.2
|
21.7
|
1.0
|
N
|
A:ASP394
|
4.3
|
20.7
|
1.0
|
CA
|
A:GLY392
|
4.3
|
21.1
|
1.0
|
CB
|
A:ASP397
|
4.3
|
19.5
|
1.0
|
CA
|
A:GLY395
|
4.4
|
22.1
|
1.0
|
CA
|
A:ASP376
|
4.4
|
22.4
|
1.0
|
N
|
A:GLY395
|
4.4
|
21.2
|
1.0
|
N
|
A:ARG393
|
4.4
|
18.2
|
1.0
|
OG
|
A:SER375
|
4.5
|
22.9
|
1.0
|
CA
|
A:GLY377
|
4.5
|
21.4
|
1.0
|
CA
|
A:SER375
|
4.5
|
22.1
|
1.0
|
N
|
A:ASP376
|
4.5
|
22.3
|
1.0
|
O
|
A:GLY395
|
4.5
|
20.6
|
1.0
|
CA
|
A:CA618
|
4.5
|
16.7
|
1.0
|
C
|
A:GLY395
|
4.5
|
21.6
|
1.0
|
CA
|
A:ARG393
|
4.5
|
20.9
|
1.0
|
CA
|
A:ASP394
|
4.6
|
20.9
|
1.0
|
CB
|
A:ARG393
|
4.6
|
20.4
|
1.0
|
N
|
A:ASN378
|
4.6
|
19.3
|
1.0
|
CA
|
A:ASN378
|
4.7
|
20.5
|
1.0
|
O
|
A:ASP376
|
4.8
|
21.7
|
1.0
|
C
|
A:ASN378
|
4.8
|
20.9
|
1.0
|
CA
|
A:ASP379
|
4.8
|
20.7
|
1.0
|
C
|
A:GLY374
|
4.9
|
21.5
|
1.0
|
|
Calcium binding site 7 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 7 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca620
b:14.8
occ:1.00
|
OD1
|
A:ASN285
|
2.3
|
19.9
|
1.0
|
O
|
A:HOH625
|
2.4
|
13.8
|
1.0
|
O
|
A:HOH638
|
2.4
|
17.1
|
1.0
|
OE1
|
A:GLU254
|
2.4
|
21.2
|
1.0
|
OD2
|
A:ASP276
|
2.4
|
21.6
|
1.0
|
O
|
A:ASN284
|
2.4
|
19.6
|
1.0
|
OD1
|
A:ASP276
|
2.4
|
18.9
|
1.0
|
CG
|
A:ASP276
|
2.7
|
20.4
|
1.0
|
C
|
A:ASN284
|
3.5
|
20.2
|
1.0
|
CG
|
A:ASN285
|
3.5
|
20.9
|
1.0
|
CD
|
A:GLU254
|
3.6
|
24.7
|
1.0
|
CA
|
A:ASN285
|
4.0
|
19.7
|
1.0
|
CB
|
A:GLU254
|
4.1
|
23.6
|
1.0
|
N
|
A:ASN285
|
4.2
|
19.6
|
1.0
|
CB
|
A:ASN285
|
4.2
|
20.2
|
1.0
|
CB
|
A:ASP276
|
4.3
|
20.4
|
1.0
|
O
|
A:HOH706
|
4.3
|
19.8
|
1.0
|
O
|
A:ASP276
|
4.3
|
22.6
|
1.0
|
CB
|
A:ASN284
|
4.4
|
18.1
|
1.0
|
CG
|
A:GLU254
|
4.4
|
23.0
|
1.0
|
OE2
|
A:GLU254
|
4.5
|
22.4
|
1.0
|
ND2
|
A:ASN285
|
4.5
|
18.9
|
1.0
|
CA
|
A:ASN284
|
4.5
|
18.8
|
1.0
|
O
|
A:HOH632
|
4.5
|
17.7
|
1.0
|
NH1
|
A:ARG260
|
4.5
|
18.4
|
1.0
|
CB
|
A:ALA363
|
4.6
|
22.4
|
1.0
|
NE2
|
A:HIS366
|
4.7
|
23.6
|
1.0
|
CD2
|
A:HIS366
|
4.7
|
23.7
|
1.0
|
N
|
A:GLU364
|
4.7
|
20.8
|
1.0
|
NH2
|
A:ARG260
|
4.9
|
19.4
|
1.0
|
O
|
A:GLU364
|
4.9
|
19.7
|
1.0
|
CB
|
A:GLU364
|
4.9
|
21.4
|
1.0
|
|
Calcium binding site 8 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 8 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca621
b:17.4
occ:1.00
|
O
|
A:HOH678
|
2.3
|
18.1
|
1.0
|
O
|
A:THR118
|
2.3
|
19.1
|
1.0
|
OD2
|
A:ASP153
|
2.3
|
21.4
|
1.0
|
OE1
|
A:GLN120
|
2.4
|
21.4
|
1.0
|
OD2
|
A:ASP157
|
2.4
|
22.4
|
1.0
|
O
|
A:SER144
|
2.4
|
20.8
|
1.0
|
OD1
|
A:ASP157
|
2.5
|
20.8
|
1.0
|
CG
|
A:ASP157
|
2.8
|
22.8
|
1.0
|
CD
|
A:GLN120
|
3.4
|
20.4
|
1.0
|
CG
|
A:ASP153
|
3.5
|
23.4
|
1.0
|
C
|
A:THR118
|
3.5
|
19.8
|
1.0
|
C
|
A:SER144
|
3.5
|
22.4
|
1.0
|
NE2
|
A:GLN120
|
3.8
|
23.0
|
1.0
|
OD1
|
A:ASP153
|
3.9
|
22.6
|
1.0
|
CB
|
A:THR118
|
4.2
|
19.1
|
1.0
|
CA
|
A:GLY145
|
4.2
|
22.4
|
1.0
|
N
|
A:SER144
|
4.3
|
23.4
|
1.0
|
N
|
A:GLY145
|
4.3
|
22.8
|
1.0
|
O
|
A:GLY142
|
4.3
|
22.9
|
1.0
|
CB
|
A:ASP157
|
4.3
|
19.8
|
1.0
|
O
|
A:ASP153
|
4.4
|
23.4
|
1.0
|
CA
|
A:THR118
|
4.4
|
19.6
|
1.0
|
OG1
|
A:THR118
|
4.4
|
19.3
|
1.0
|
N
|
A:ALA119
|
4.4
|
19.9
|
1.0
|
CA
|
A:ALA119
|
4.5
|
17.8
|
1.0
|
CA
|
A:SER144
|
4.5
|
22.9
|
1.0
|
N
|
A:GLN120
|
4.6
|
18.9
|
1.0
|
C
|
A:ALA119
|
4.7
|
18.9
|
1.0
|
CB
|
A:ASP153
|
4.7
|
20.3
|
1.0
|
CG
|
A:GLN120
|
4.7
|
20.0
|
1.0
|
O
|
A:HOH641
|
4.8
|
17.1
|
1.0
|
O
|
A:HOH650
|
4.8
|
18.5
|
1.0
|
CD
|
A:ARG141
|
4.8
|
20.9
|
1.0
|
C
|
A:ASP153
|
4.8
|
22.6
|
1.0
|
CB
|
A:GLN120
|
5.0
|
18.0
|
1.0
|
|
Calcium binding site 9 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 9 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca614
b:20.3
occ:1.00
|
OD1
|
C:ASP513
|
2.3
|
20.8
|
1.0
|
OD2
|
C:ASP495
|
2.3
|
20.9
|
1.0
|
O
|
C:ALA510
|
2.3
|
20.1
|
1.0
|
O
|
C:GLY491
|
2.3
|
22.5
|
1.0
|
O
|
C:GLY508
|
2.3
|
16.8
|
1.0
|
O
|
C:GLY493
|
2.4
|
19.3
|
1.0
|
CG
|
C:ASP513
|
3.0
|
19.2
|
1.0
|
OD2
|
C:ASP513
|
3.1
|
20.9
|
1.0
|
CG
|
C:ASP495
|
3.4
|
22.5
|
1.0
|
C
|
C:GLY491
|
3.5
|
24.0
|
1.0
|
C
|
C:GLY508
|
3.5
|
19.4
|
1.0
|
C
|
C:ALA510
|
3.6
|
18.6
|
1.0
|
C
|
C:GLY493
|
3.6
|
22.0
|
1.0
|
C
|
C:ASN509
|
3.9
|
19.6
|
1.0
|
O
|
C:ASN509
|
3.9
|
22.1
|
1.0
|
N
|
C:GLY491
|
4.0
|
23.3
|
1.0
|
N
|
C:GLY493
|
4.0
|
24.0
|
1.0
|
N
|
C:ASP495
|
4.1
|
21.5
|
1.0
|
CB
|
C:ASP495
|
4.1
|
21.6
|
1.0
|
N
|
C:ALA510
|
4.1
|
18.1
|
1.0
|
C
|
C:ASP492
|
4.2
|
25.2
|
1.0
|
OD1
|
C:ASP495
|
4.2
|
25.1
|
1.0
|
CA
|
C:GLY491
|
4.3
|
24.5
|
1.0
|
CA
|
C:GLY508
|
4.4
|
18.8
|
1.0
|
CA
|
C:GLY493
|
4.4
|
22.6
|
1.0
|
N
|
C:ASP492
|
4.4
|
23.8
|
1.0
|
N
|
C:ASN509
|
4.4
|
18.0
|
1.0
|
CB
|
C:ASP513
|
4.5
|
17.7
|
1.0
|
N
|
C:GLY511
|
4.5
|
20.0
|
1.0
|
CA
|
C:ALA510
|
4.5
|
19.1
|
1.0
|
CA
|
C:ASN509
|
4.5
|
20.0
|
1.0
|
CA
|
C:GLY511
|
4.5
|
19.2
|
1.0
|
CB
|
C:ASN509
|
4.5
|
19.9
|
1.0
|
O
|
C:ASP492
|
4.5
|
26.1
|
1.0
|
N
|
C:ASP494
|
4.5
|
21.5
|
1.0
|
CA
|
C:ASP492
|
4.6
|
25.7
|
1.0
|
O
|
C:HOH827
|
4.6
|
28.6
|
1.0
|
C
|
C:GLY490
|
4.7
|
23.4
|
1.0
|
C
|
C:GLY511
|
4.7
|
19.5
|
1.0
|
CA
|
C:ASP494
|
4.7
|
21.2
|
1.0
|
O
|
C:GLY511
|
4.8
|
16.6
|
1.0
|
CA
|
C:CA616
|
4.8
|
18.3
|
1.0
|
CA
|
C:ASP495
|
4.8
|
22.1
|
1.0
|
CA
|
C:GLY490
|
4.9
|
22.1
|
1.0
|
C
|
C:ASP494
|
4.9
|
22.5
|
1.0
|
|
Calcium binding site 10 out
of 48 in 2qub
Go back to
Calcium Binding Sites List in 2qub
Calcium binding site 10 out
of 48 in the Crystal Structure of Extracellular Lipase Lipa From Serratia Marcescens
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 Extracellular Lipase Lipa From Serratia Marcescens within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca615
b:16.4
occ:1.00
|
O
|
C:PHE549
|
2.3
|
20.1
|
1.0
|
O
|
C:HOH751
|
2.3
|
16.9
|
1.0
|
OD2
|
C:ASP532
|
2.3
|
20.2
|
1.0
|
O
|
C:GLY530
|
2.3
|
18.4
|
1.0
|
O
|
C:GLY528
|
2.4
|
20.1
|
1.0
|
OD1
|
C:ASP552
|
2.4
|
19.9
|
1.0
|
CG
|
C:ASP552
|
3.3
|
24.9
|
1.0
|
C
|
C:PHE549
|
3.5
|
20.4
|
1.0
|
CG
|
C:ASP532
|
3.5
|
22.6
|
1.0
|
OD2
|
C:ASP552
|
3.5
|
30.9
|
1.0
|
C
|
C:GLY530
|
3.5
|
19.8
|
1.0
|
C
|
C:GLY528
|
3.6
|
20.8
|
1.0
|
C
|
C:SER529
|
3.9
|
20.1
|
1.0
|
O
|
C:SER529
|
3.9
|
20.2
|
1.0
|
C
|
C:GLY527
|
4.1
|
20.8
|
1.0
|
N
|
C:ASP532
|
4.1
|
19.7
|
1.0
|
N
|
C:GLY528
|
4.2
|
19.3
|
1.0
|
CB
|
C:ASP532
|
4.2
|
19.9
|
1.0
|
N
|
C:GLY530
|
4.2
|
18.2
|
1.0
|
CA
|
C:PHE549
|
4.3
|
20.8
|
1.0
|
O
|
C:GLY527
|
4.4
|
20.2
|
1.0
|
N
|
C:ASP531
|
4.4
|
18.9
|
1.0
|
CA
|
C:SER529
|
4.4
|
21.1
|
1.0
|
N
|
C:GLY550
|
4.4
|
20.8
|
1.0
|
CA
|
C:GLY550
|
4.4
|
20.8
|
1.0
|
CA
|
C:GLY530
|
4.5
|
18.6
|
1.0
|
OD1
|
C:ASP532
|
4.5
|
19.3
|
1.0
|
N
|
C:SER529
|
4.5
|
19.6
|
1.0
|
CA
|
C:GLY528
|
4.5
|
22.5
|
1.0
|
CB
|
C:PHE549
|
4.5
|
21.0
|
1.0
|
CA
|
C:ASP531
|
4.5
|
20.3
|
1.0
|
CA
|
C:GLY527
|
4.5
|
18.9
|
1.0
|
C
|
C:GLY550
|
4.6
|
21.6
|
1.0
|
CA
|
C:CA616
|
4.7
|
18.3
|
1.0
|
CB
|
C:ASP552
|
4.7
|
18.8
|
1.0
|
C
|
C:ASP531
|
4.8
|
19.2
|
1.0
|
O
|
C:HOH634
|
4.8
|
14.1
|
1.0
|
CA
|
C:ASP532
|
4.8
|
19.5
|
1.0
|
N
|
C:ARG551
|
4.8
|
19.4
|
1.0
|
CD1
|
C:PHE549
|
4.9
|
22.1
|
1.0
|
|
Reference:
R.Meier,
T.Drepper,
V.Svensson,
K.E.Jaeger,
U.Baumann.
A Calcium-Gated Lid and A Large Beta-Roll Sandwich Are Revealed By the Crystal Structure of Extracellular Lipase From Serratia Marcescens. J.Biol.Chem. V. 282 31477 2007.
ISSN: ISSN 0021-9258
PubMed: 17728256
DOI: 10.1074/JBC.M704942200
Page generated: Fri Jul 12 15:31:31 2024
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