Zinc in PDB 3pnz: Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
Protein crystallography data
The structure of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes, PDB code: 3pnz
was solved by
A.A.Fedorov,
E.V.Fedorov,
D.F.Xiang,
F.M.Raushel,
S.C.Almo,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
39.58 /
1.60
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
152.723,
62.933,
152.744,
90.00,
89.97,
90.00
|
|
R / Rfree (%)
|
17.8 /
19.8
|
Zinc Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Zinc atom in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
(pdb code 3pnz). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the
Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes, PDB code: 3pnz:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Zinc binding site 1 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 1 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn333
b:26.5
occ:0.63
|
O3
|
A:PO4335
|
2.0
|
25.3
|
1.0
|
|
NE2
|
A:HIS24
|
2.1
|
21.8
|
1.0
|
|
NE2
|
A:HIS22
|
2.1
|
20.4
|
1.0
|
|
OQ1
|
A:KCX154
|
2.3
|
25.1
|
0.9
|
|
OD1
|
A:ASP272
|
2.5
|
23.7
|
1.0
|
|
CE1
|
A:HIS24
|
3.1
|
24.2
|
1.0
|
|
CD2
|
A:HIS22
|
3.1
|
21.8
|
1.0
|
|
CD2
|
A:HIS24
|
3.1
|
20.5
|
1.0
|
|
P
|
A:PO4335
|
3.1
|
29.6
|
0.5
|
|
CE1
|
A:HIS22
|
3.1
|
23.9
|
1.0
|
|
O1
|
A:PO4335
|
3.2
|
27.9
|
0.5
|
|
CG
|
A:ASP272
|
3.3
|
23.7
|
1.0
|
|
CX
|
A:KCX154
|
3.3
|
22.9
|
0.4
|
|
OD2
|
A:ASP272
|
3.5
|
26.7
|
1.0
|
|
OQ2
|
A:KCX154
|
3.7
|
22.3
|
0.6
|
|
ZN
|
A:ZN334
|
3.8
|
25.3
|
0.4
|
|
O2
|
A:PO4335
|
4.0
|
27.7
|
0.8
|
|
O4
|
A:PO4335
|
4.2
|
28.5
|
0.4
|
|
ND1
|
A:HIS24
|
4.2
|
19.2
|
1.0
|
|
CG
|
A:HIS24
|
4.2
|
20.6
|
1.0
|
|
ND1
|
A:HIS22
|
4.2
|
23.5
|
1.0
|
|
CG
|
A:HIS22
|
4.2
|
18.9
|
1.0
|
|
CE1
|
A:HIS215
|
4.3
|
26.4
|
1.0
|
|
NZ
|
A:KCX154
|
4.4
|
25.5
|
1.0
|
|
CB
|
A:ALA66
|
4.4
|
19.2
|
1.0
|
|
CB
|
A:ASP272
|
4.5
|
21.1
|
1.0
|
|
NE2
|
A:HIS215
|
4.6
|
23.9
|
1.0
|
|
CA
|
A:ASP272
|
5.0
|
20.4
|
1.0
|
|
Zinc binding site 2 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 2 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn334
b:25.3
occ:0.42
|
OQ2
|
A:KCX154
|
1.9
|
22.3
|
0.6
|
|
ND1
|
A:HIS187
|
2.1
|
21.3
|
1.0
|
|
NE2
|
A:HIS215
|
2.2
|
23.9
|
1.0
|
|
O2
|
A:PO4335
|
2.3
|
27.7
|
0.8
|
|
O3
|
A:PO4335
|
2.8
|
25.3
|
1.0
|
|
CX
|
A:KCX154
|
3.0
|
22.9
|
0.4
|
|
CE1
|
A:HIS187
|
3.0
|
23.5
|
1.0
|
|
P
|
A:PO4335
|
3.1
|
29.6
|
0.5
|
|
CD2
|
A:HIS215
|
3.1
|
22.7
|
1.0
|
|
CG
|
A:HIS187
|
3.2
|
19.5
|
1.0
|
|
CE1
|
A:HIS215
|
3.2
|
26.4
|
1.0
|
|
OQ1
|
A:KCX154
|
3.3
|
25.1
|
0.9
|
|
CB
|
A:HIS187
|
3.5
|
21.0
|
1.0
|
|
ND2
|
A:ASN96
|
3.6
|
28.8
|
1.0
|
|
ZN
|
A:ZN333
|
3.8
|
26.5
|
0.6
|
|
CE1
|
A:HIS22
|
4.0
|
23.9
|
1.0
|
|
NZ
|
A:KCX154
|
4.1
|
25.5
|
1.0
|
|
O1
|
A:PO4335
|
4.1
|
27.9
|
0.5
|
|
O4
|
A:PO4335
|
4.2
|
28.5
|
0.4
|
|
NE2
|
A:HIS187
|
4.2
|
19.7
|
1.0
|
|
NE2
|
A:HIS22
|
4.2
|
20.4
|
1.0
|
|
CD2
|
A:HIS187
|
4.3
|
19.8
|
1.0
|
|
CA
|
A:HIS187
|
4.3
|
16.4
|
1.0
|
|
ND1
|
A:HIS215
|
4.3
|
26.3
|
1.0
|
|
CG
|
A:HIS215
|
4.3
|
22.4
|
1.0
|
|
CG
|
A:ASN96
|
4.5
|
26.5
|
1.0
|
|
CE
|
A:KCX154
|
4.6
|
23.0
|
1.0
|
|
OD1
|
A:ASN96
|
4.6
|
30.4
|
1.0
|
|
NZ
|
A:LYS97
|
4.8
|
30.8
|
1.0
|
|
OD2
|
A:ASP272
|
4.9
|
26.7
|
1.0
|
|
Zinc binding site 3 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 3 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn334
b:28.1
occ:0.66
|
O3
|
B:PO4336
|
2.0
|
27.6
|
0.9
|
|
NE2
|
B:HIS24
|
2.1
|
23.0
|
1.0
|
|
NE2
|
B:HIS22
|
2.2
|
22.4
|
1.0
|
|
OD1
|
B:ASP272
|
2.4
|
25.4
|
1.0
|
|
OQ1
|
B:KCX154
|
2.4
|
28.0
|
0.8
|
|
CE1
|
B:HIS24
|
3.1
|
22.6
|
1.0
|
|
CD2
|
B:HIS24
|
3.1
|
22.1
|
1.0
|
|
P
|
B:PO4336
|
3.1
|
29.3
|
0.5
|
|
CD2
|
B:HIS22
|
3.1
|
21.4
|
1.0
|
|
CE1
|
B:HIS22
|
3.2
|
23.8
|
1.0
|
|
O1
|
B:PO4336
|
3.2
|
27.1
|
0.6
|
|
CG
|
B:ASP272
|
3.2
|
24.0
|
1.0
|
|
CX
|
B:KCX154
|
3.3
|
24.7
|
0.5
|
|
OD2
|
B:ASP272
|
3.5
|
26.0
|
1.0
|
|
OQ2
|
B:KCX154
|
3.6
|
23.8
|
0.7
|
|
ZN
|
B:ZN335
|
3.8
|
24.1
|
0.4
|
|
O2
|
B:PO4336
|
3.9
|
29.9
|
0.9
|
|
ND1
|
B:HIS24
|
4.2
|
21.8
|
1.0
|
|
O4
|
B:PO4336
|
4.2
|
29.0
|
0.5
|
|
CG
|
B:HIS24
|
4.2
|
21.6
|
1.0
|
|
CG
|
B:HIS22
|
4.3
|
19.1
|
1.0
|
|
ND1
|
B:HIS22
|
4.3
|
23.3
|
1.0
|
|
CE1
|
B:HIS215
|
4.3
|
26.1
|
1.0
|
|
CB
|
B:ALA66
|
4.5
|
22.5
|
1.0
|
|
NZ
|
B:KCX154
|
4.5
|
24.9
|
1.0
|
|
CB
|
B:ASP272
|
4.5
|
20.3
|
1.0
|
|
NE2
|
B:HIS215
|
4.6
|
23.3
|
1.0
|
|
CA
|
B:ASP272
|
5.0
|
20.8
|
1.0
|
|
Zinc binding site 4 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 4 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn335
b:24.1
occ:0.41
|
OQ2
|
B:KCX154
|
1.9
|
23.8
|
0.7
|
|
ND1
|
B:HIS187
|
2.2
|
22.4
|
1.0
|
|
NE2
|
B:HIS215
|
2.2
|
23.3
|
1.0
|
|
O2
|
B:PO4336
|
2.3
|
29.9
|
0.9
|
|
O3
|
B:PO4336
|
2.8
|
27.6
|
0.9
|
|
CX
|
B:KCX154
|
3.0
|
24.7
|
0.5
|
|
CE1
|
B:HIS187
|
3.1
|
21.3
|
1.0
|
|
P
|
B:PO4336
|
3.1
|
29.3
|
0.5
|
|
CD2
|
B:HIS215
|
3.2
|
22.6
|
1.0
|
|
CE1
|
B:HIS215
|
3.2
|
26.1
|
1.0
|
|
CG
|
B:HIS187
|
3.2
|
19.3
|
1.0
|
|
OQ1
|
B:KCX154
|
3.3
|
28.0
|
0.8
|
|
CB
|
B:HIS187
|
3.6
|
20.4
|
1.0
|
|
OD1
|
B:ASN96
|
3.6
|
31.2
|
1.0
|
|
ZN
|
B:ZN334
|
3.8
|
28.1
|
0.7
|
|
CE1
|
B:HIS22
|
4.0
|
23.8
|
1.0
|
|
O1
|
B:PO4336
|
4.1
|
27.1
|
0.6
|
|
NZ
|
B:KCX154
|
4.1
|
24.9
|
1.0
|
|
NE2
|
B:HIS22
|
4.2
|
22.4
|
1.0
|
|
O4
|
B:PO4336
|
4.2
|
29.0
|
0.5
|
|
NE2
|
B:HIS187
|
4.2
|
19.2
|
1.0
|
|
CA
|
B:HIS187
|
4.3
|
17.0
|
1.0
|
|
ND1
|
B:HIS215
|
4.3
|
26.8
|
1.0
|
|
CD2
|
B:HIS187
|
4.3
|
19.9
|
1.0
|
|
CG
|
B:HIS215
|
4.3
|
22.0
|
1.0
|
|
CG
|
B:ASN96
|
4.5
|
26.9
|
1.0
|
|
CE
|
B:KCX154
|
4.6
|
24.0
|
1.0
|
|
ND2
|
B:ASN96
|
4.7
|
30.0
|
1.0
|
|
OD2
|
B:ASP272
|
4.8
|
26.0
|
1.0
|
|
NZ
|
B:LYS97
|
4.9
|
32.0
|
1.0
|
|
Zinc binding site 5 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 5 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn337
b:22.8
occ:0.65
|
O3
|
C:PO4339
|
2.0
|
23.8
|
0.9
|
|
NE2
|
C:HIS24
|
2.0
|
17.8
|
1.0
|
|
NE2
|
C:HIS22
|
2.1
|
19.3
|
1.0
|
|
OD1
|
C:ASP272
|
2.2
|
20.2
|
1.0
|
|
OQ1
|
C:KCX154
|
2.7
|
20.6
|
0.8
|
|
CD2
|
C:HIS24
|
3.0
|
17.0
|
1.0
|
|
CE1
|
C:HIS24
|
3.0
|
19.0
|
1.0
|
|
CG
|
C:ASP272
|
3.0
|
19.7
|
1.0
|
|
CD2
|
C:HIS22
|
3.1
|
18.9
|
1.0
|
|
P
|
C:PO4339
|
3.1
|
25.2
|
0.3
|
|
CE1
|
C:HIS22
|
3.2
|
18.6
|
1.0
|
|
O1
|
C:PO4339
|
3.3
|
23.6
|
0.4
|
|
OD2
|
C:ASP272
|
3.3
|
23.2
|
1.0
|
|
CX
|
C:KCX154
|
3.6
|
20.1
|
0.4
|
|
ZN
|
C:ZN338
|
3.8
|
25.0
|
0.4
|
|
OQ2
|
C:KCX154
|
3.8
|
19.5
|
0.5
|
|
O2
|
C:PO4339
|
4.0
|
25.8
|
0.6
|
|
ND1
|
C:HIS24
|
4.1
|
17.4
|
1.0
|
|
CG
|
C:HIS24
|
4.2
|
15.4
|
1.0
|
|
O4
|
C:PO4339
|
4.2
|
29.4
|
0.5
|
|
CG
|
C:HIS22
|
4.2
|
15.6
|
1.0
|
|
ND1
|
C:HIS22
|
4.3
|
20.8
|
1.0
|
|
CE1
|
C:HIS215
|
4.3
|
22.9
|
1.0
|
|
CB
|
C:ASP272
|
4.4
|
16.8
|
1.0
|
|
NE2
|
C:HIS215
|
4.5
|
22.6
|
1.0
|
|
O
|
C:HOH974
|
4.6
|
34.5
|
1.0
|
|
CB
|
C:ALA66
|
4.7
|
16.3
|
1.0
|
|
NZ
|
C:KCX154
|
4.8
|
20.3
|
1.0
|
|
CA
|
C:ASP272
|
4.8
|
17.4
|
1.0
|
|
O
|
C:HOH1550
|
4.9
|
41.1
|
1.0
|
|
Zinc binding site 6 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 6 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn338
b:25.0
occ:0.40
|
OQ2
|
C:KCX154
|
2.0
|
19.5
|
0.5
|
|
NE2
|
C:HIS215
|
2.2
|
22.6
|
1.0
|
|
ND1
|
C:HIS187
|
2.2
|
18.5
|
1.0
|
|
O2
|
C:PO4339
|
2.3
|
25.8
|
0.6
|
|
O3
|
C:PO4339
|
2.7
|
23.8
|
0.9
|
|
CX
|
C:KCX154
|
3.0
|
20.1
|
0.4
|
|
P
|
C:PO4339
|
3.0
|
25.2
|
0.3
|
|
CE1
|
C:HIS187
|
3.1
|
21.6
|
1.0
|
|
CD2
|
C:HIS215
|
3.2
|
21.2
|
1.0
|
|
CE1
|
C:HIS215
|
3.2
|
22.9
|
1.0
|
|
OQ1
|
C:KCX154
|
3.3
|
20.6
|
0.8
|
|
CG
|
C:HIS187
|
3.3
|
16.4
|
1.0
|
|
CB
|
C:HIS187
|
3.6
|
17.2
|
1.0
|
|
ZN
|
C:ZN337
|
3.8
|
22.8
|
0.7
|
|
OD1
|
C:ASN96
|
3.9
|
37.7
|
1.0
|
|
CE1
|
C:HIS22
|
3.9
|
18.6
|
1.0
|
|
O4
|
C:PO4339
|
4.0
|
29.4
|
0.5
|
|
NE2
|
C:HIS22
|
4.1
|
19.3
|
1.0
|
|
O1
|
C:PO4339
|
4.2
|
23.6
|
0.4
|
|
NZ
|
C:KCX154
|
4.2
|
20.3
|
1.0
|
|
NE2
|
C:HIS187
|
4.3
|
17.4
|
1.0
|
|
ND1
|
C:HIS215
|
4.3
|
23.9
|
1.0
|
|
CA
|
C:HIS187
|
4.3
|
15.9
|
1.0
|
|
CG
|
C:HIS215
|
4.3
|
19.3
|
1.0
|
|
CD2
|
C:HIS187
|
4.4
|
16.7
|
1.0
|
|
ND2
|
C:ASN96
|
4.6
|
31.8
|
1.0
|
|
CE
|
C:KCX154
|
4.7
|
20.6
|
1.0
|
|
CG
|
C:ASN96
|
4.7
|
29.8
|
1.0
|
|
OD2
|
C:ASP272
|
4.8
|
23.2
|
1.0
|
|
NZ
|
C:LYS97
|
4.8
|
28.0
|
1.0
|
|
Zinc binding site 7 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 7 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn334
b:24.7
occ:0.64
|
O3
|
D:PO4336
|
2.0
|
25.0
|
0.9
|
|
NE2
|
D:HIS24
|
2.1
|
19.1
|
1.0
|
|
NE2
|
D:HIS22
|
2.1
|
19.9
|
1.0
|
|
OD1
|
D:ASP272
|
2.2
|
22.2
|
1.0
|
|
OQ1
|
D:KCX154
|
2.6
|
23.9
|
0.7
|
|
CD2
|
D:HIS22
|
3.0
|
18.5
|
1.0
|
|
CD2
|
D:HIS24
|
3.1
|
19.0
|
1.0
|
|
CE1
|
D:HIS24
|
3.1
|
19.7
|
1.0
|
|
P
|
D:PO4336
|
3.1
|
28.6
|
0.4
|
|
CG
|
D:ASP272
|
3.1
|
21.4
|
1.0
|
|
CE1
|
D:HIS22
|
3.2
|
20.5
|
1.0
|
|
O1
|
D:PO4336
|
3.2
|
26.2
|
0.3
|
|
OD2
|
D:ASP272
|
3.4
|
25.1
|
1.0
|
|
CX
|
D:KCX154
|
3.5
|
23.8
|
0.3
|
|
ZN
|
D:ZN335
|
3.8
|
27.0
|
0.4
|
|
OQ2
|
D:KCX154
|
3.8
|
25.0
|
0.6
|
|
O2
|
D:PO4336
|
4.0
|
31.4
|
0.7
|
|
ND1
|
D:HIS24
|
4.2
|
17.1
|
1.0
|
|
O4
|
D:PO4336
|
4.2
|
30.1
|
0.3
|
|
CG
|
D:HIS24
|
4.2
|
16.5
|
1.0
|
|
CG
|
D:HIS22
|
4.2
|
17.3
|
1.0
|
|
ND1
|
D:HIS22
|
4.2
|
21.5
|
1.0
|
|
CE1
|
D:HIS215
|
4.3
|
24.1
|
1.0
|
|
CB
|
D:ASP272
|
4.4
|
18.2
|
1.0
|
|
CB
|
D:ALA66
|
4.5
|
18.0
|
1.0
|
|
NE2
|
D:HIS215
|
4.5
|
23.2
|
1.0
|
|
O
|
D:HOH1139
|
4.5
|
37.0
|
1.0
|
|
NZ
|
D:KCX154
|
4.7
|
24.6
|
1.0
|
|
CA
|
D:ASP272
|
4.9
|
17.1
|
1.0
|
|
Zinc binding site 8 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 8 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn335
b:27.0
occ:0.40
|
OQ2
|
D:KCX154
|
2.1
|
25.0
|
0.6
|
|
ND1
|
D:HIS187
|
2.2
|
20.4
|
1.0
|
|
NE2
|
D:HIS215
|
2.2
|
23.2
|
1.0
|
|
O2
|
D:PO4336
|
2.4
|
31.4
|
0.7
|
|
O3
|
D:PO4336
|
2.6
|
25.0
|
0.9
|
|
CX
|
D:KCX154
|
3.0
|
23.8
|
0.3
|
|
P
|
D:PO4336
|
3.1
|
28.6
|
0.4
|
|
CE1
|
D:HIS187
|
3.1
|
23.9
|
1.0
|
|
CE1
|
D:HIS215
|
3.2
|
24.1
|
1.0
|
|
CD2
|
D:HIS215
|
3.2
|
21.8
|
1.0
|
|
CG
|
D:HIS187
|
3.2
|
18.7
|
1.0
|
|
OQ1
|
D:KCX154
|
3.3
|
23.9
|
0.7
|
|
CB
|
D:HIS187
|
3.6
|
20.6
|
1.0
|
|
ZN
|
D:ZN334
|
3.8
|
24.7
|
0.6
|
|
CE1
|
D:HIS22
|
3.9
|
20.5
|
1.0
|
|
OD1
|
D:ASN96
|
4.0
|
37.0
|
1.0
|
|
O4
|
D:PO4336
|
4.0
|
30.1
|
0.3
|
|
NE2
|
D:HIS22
|
4.1
|
19.9
|
1.0
|
|
O1
|
D:PO4336
|
4.2
|
26.2
|
0.3
|
|
NZ
|
D:KCX154
|
4.2
|
24.6
|
1.0
|
|
NE2
|
D:HIS187
|
4.3
|
20.1
|
1.0
|
|
ND1
|
D:HIS215
|
4.3
|
24.5
|
1.0
|
|
CA
|
D:HIS187
|
4.3
|
14.9
|
1.0
|
|
CG
|
D:HIS215
|
4.3
|
20.8
|
1.0
|
|
CD2
|
D:HIS187
|
4.3
|
21.9
|
1.0
|
|
ND2
|
D:ASN96
|
4.4
|
31.6
|
1.0
|
|
CE
|
D:KCX154
|
4.6
|
25.1
|
1.0
|
|
CG
|
D:ASN96
|
4.6
|
36.1
|
1.0
|
|
OD2
|
D:ASP272
|
4.8
|
25.1
|
1.0
|
|
NZ
|
D:LYS97
|
4.9
|
33.0
|
1.0
|
|
Zinc binding site 9 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 9 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 9 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn335
b:21.6
occ:0.64
|
O3
|
E:PO4337
|
2.0
|
23.4
|
0.9
|
|
NE2
|
E:HIS24
|
2.0
|
14.7
|
1.0
|
|
NE2
|
E:HIS22
|
2.1
|
17.6
|
1.0
|
|
OD1
|
E:ASP272
|
2.3
|
18.9
|
1.0
|
|
OQ1
|
E:KCX154
|
2.6
|
22.0
|
0.8
|
|
CD2
|
E:HIS24
|
3.0
|
16.3
|
1.0
|
|
CE1
|
E:HIS24
|
3.0
|
16.9
|
1.0
|
|
CG
|
E:ASP272
|
3.1
|
20.5
|
1.0
|
|
CD2
|
E:HIS22
|
3.1
|
16.4
|
1.0
|
|
CE1
|
E:HIS22
|
3.1
|
18.6
|
1.0
|
|
P
|
E:PO4337
|
3.2
|
25.5
|
0.3
|
|
O1
|
E:PO4337
|
3.3
|
24.3
|
0.3
|
|
OD2
|
E:ASP272
|
3.3
|
21.6
|
1.0
|
|
CX
|
E:KCX154
|
3.6
|
19.7
|
0.5
|
|
ZN
|
E:ZN336
|
3.8
|
25.6
|
0.4
|
|
OQ2
|
E:KCX154
|
3.9
|
19.8
|
0.5
|
|
O2
|
E:PO4337
|
4.1
|
25.2
|
0.5
|
|
ND1
|
E:HIS24
|
4.1
|
16.0
|
1.0
|
|
CG
|
E:HIS24
|
4.1
|
13.8
|
1.0
|
|
O4
|
E:PO4337
|
4.2
|
29.0
|
0.5
|
|
ND1
|
E:HIS22
|
4.2
|
19.6
|
1.0
|
|
CG
|
E:HIS22
|
4.3
|
15.4
|
1.0
|
|
CE1
|
E:HIS215
|
4.3
|
21.9
|
1.0
|
|
CB
|
E:ASP272
|
4.4
|
17.5
|
1.0
|
|
NE2
|
E:HIS215
|
4.5
|
22.9
|
1.0
|
|
CB
|
E:ALA66
|
4.6
|
15.2
|
1.0
|
|
O
|
E:HOH1012
|
4.7
|
34.9
|
1.0
|
|
NZ
|
E:KCX154
|
4.7
|
20.1
|
1.0
|
|
CA
|
E:ASP272
|
4.9
|
16.0
|
1.0
|
|
Zinc binding site 10 out
of 12 in 3pnz
Go back to
Zinc Binding Sites List in 3pnz
Zinc binding site 10 out
of 12 in the Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 10 of Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn336
b:25.6
occ:0.40
|
OQ2
|
E:KCX154
|
2.0
|
19.8
|
0.5
|
|
NE2
|
E:HIS215
|
2.2
|
22.9
|
1.0
|
|
ND1
|
E:HIS187
|
2.3
|
19.9
|
1.0
|
|
O2
|
E:PO4337
|
2.5
|
25.2
|
0.5
|
|
O3
|
E:PO4337
|
2.6
|
23.4
|
0.9
|
|
CX
|
E:KCX154
|
3.0
|
19.7
|
0.5
|
|
P
|
E:PO4337
|
3.1
|
25.5
|
0.3
|
|
CE1
|
E:HIS187
|
3.1
|
20.9
|
1.0
|
|
CD2
|
E:HIS215
|
3.2
|
20.1
|
1.0
|
|
CE1
|
E:HIS215
|
3.2
|
21.9
|
1.0
|
|
OQ1
|
E:KCX154
|
3.2
|
22.0
|
0.8
|
|
CG
|
E:HIS187
|
3.3
|
18.0
|
1.0
|
|
CB
|
E:HIS187
|
3.7
|
16.9
|
1.0
|
|
ZN
|
E:ZN335
|
3.8
|
21.6
|
0.6
|
|
ND2
|
E:ASN96
|
3.8
|
31.1
|
1.0
|
|
CE1
|
E:HIS22
|
3.9
|
18.6
|
1.0
|
|
O4
|
E:PO4337
|
3.9
|
29.0
|
0.5
|
|
NE2
|
E:HIS22
|
4.1
|
17.6
|
1.0
|
|
NZ
|
E:KCX154
|
4.2
|
20.1
|
1.0
|
|
O1
|
E:PO4337
|
4.3
|
24.3
|
0.3
|
|
NE2
|
E:HIS187
|
4.3
|
19.8
|
1.0
|
|
CA
|
E:HIS187
|
4.3
|
15.0
|
1.0
|
|
ND1
|
E:HIS215
|
4.3
|
22.9
|
1.0
|
|
CG
|
E:HIS215
|
4.4
|
17.9
|
1.0
|
|
CD2
|
E:HIS187
|
4.4
|
18.7
|
1.0
|
|
CE
|
E:KCX154
|
4.7
|
21.0
|
1.0
|
|
CG
|
E:ASN96
|
4.7
|
26.5
|
1.0
|
|
OD2
|
E:ASP272
|
4.8
|
21.6
|
1.0
|
|
OD1
|
E:ASN96
|
4.8
|
32.5
|
1.0
|
|
NZ
|
E:LYS97
|
4.8
|
29.1
|
1.0
|
|
Reference:
A.A.Fedorov,
E.V.Fedorov,
D.F.Xiang,
F.M.Raushel,
S.C.Almo.
Crystal Structure of the Lactonase LMO2620 From Listeria Monocytogenes To Be Published.
Page generated: Sat Oct 26 11:37:13 2024
|
