Zinc in PDB 8r72: Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A
Protein crystallography data
The structure of Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A, PDB code: 8r72
was solved by
A.Cartmell,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
52.13 /
2.58
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
53.87,
137.4,
203.33,
90,
90,
90
|
R / Rfree (%)
|
21.9 /
28.1
|
Zinc Binding Sites:
The binding sites of Zinc atom in the Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A
(pdb code 8r72). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the
Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A, PDB code: 8r72:
Jump to Zinc binding site number:
1;
2;
Zinc binding site 1 out
of 2 in 8r72
Go back to
Zinc Binding Sites List in 8r72
Zinc binding site 1 out
of 2 in the Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn701
b:45.6
occ:1.00
|
HE2
|
A:HIS482
|
1.3
|
36.0
|
0.0
|
HD1
|
A:HIS438
|
1.3
|
44.8
|
0.0
|
O
|
A:HOH801
|
1.9
|
30.0
|
1.0
|
O
|
A:HOH803
|
2.0
|
50.1
|
1.0
|
NE2
|
A:HIS482
|
2.1
|
36.6
|
1.0
|
ND1
|
A:HIS438
|
2.1
|
44.8
|
1.0
|
OD1
|
A:ASP456
|
2.2
|
34.4
|
1.0
|
O
|
A:HOH802
|
2.2
|
27.8
|
1.0
|
CE1
|
A:HIS438
|
2.8
|
47.4
|
1.0
|
HE1
|
A:HIS438
|
2.8
|
45.8
|
1.0
|
CD2
|
A:HIS482
|
3.0
|
36.8
|
1.0
|
CE1
|
A:HIS482
|
3.1
|
38.7
|
1.0
|
HD2
|
A:HIS482
|
3.2
|
36.5
|
1.0
|
CG
|
A:ASP456
|
3.2
|
37.0
|
1.0
|
CG
|
A:HIS438
|
3.3
|
43.5
|
1.0
|
HE1
|
A:HIS482
|
3.3
|
38.0
|
1.0
|
H
|
A:GLY458
|
3.5
|
34.6
|
1.0
|
OD2
|
A:ASP456
|
3.7
|
37.3
|
1.0
|
HB3
|
A:HIS438
|
3.7
|
42.2
|
1.0
|
O
|
A:THR476
|
3.8
|
37.4
|
1.0
|
HB2
|
A:HIS438
|
3.8
|
42.2
|
1.0
|
CB
|
A:HIS438
|
3.9
|
42.2
|
1.0
|
NE2
|
A:HIS438
|
4.0
|
43.2
|
1.0
|
HA2
|
A:GLY458
|
4.1
|
35.4
|
1.0
|
H
|
A:ALA335
|
4.1
|
45.6
|
1.0
|
O
|
A:ALA335
|
4.1
|
34.1
|
1.0
|
CG
|
A:HIS482
|
4.2
|
35.9
|
1.0
|
ND1
|
A:HIS482
|
4.2
|
38.0
|
1.0
|
CD2
|
A:HIS438
|
4.2
|
46.3
|
1.0
|
N
|
A:GLY458
|
4.3
|
35.5
|
1.0
|
CB
|
A:ASP456
|
4.5
|
38.2
|
1.0
|
O
|
A:ASN333
|
4.5
|
33.7
|
1.0
|
H
|
A:ALA457
|
4.5
|
34.7
|
1.0
|
HA
|
A:PHE334
|
4.5
|
42.7
|
1.0
|
N
|
A:ALA335
|
4.6
|
47.2
|
1.0
|
HB3
|
A:ASP440
|
4.6
|
39.1
|
1.0
|
HB3
|
A:ASP456
|
4.6
|
37.7
|
1.0
|
CA
|
A:GLY458
|
4.7
|
36.5
|
1.0
|
HA
|
A:ASP456
|
4.7
|
36.2
|
1.0
|
OD2
|
A:ASP440
|
4.7
|
37.2
|
1.0
|
HE2
|
A:HIS438
|
4.7
|
43.4
|
0.0
|
N
|
A:ALA457
|
4.7
|
35.5
|
1.0
|
HB3
|
A:ALA457
|
4.8
|
34.9
|
1.0
|
HA
|
A:ALA335
|
4.8
|
43.0
|
1.0
|
C
|
A:ALA335
|
4.8
|
39.2
|
1.0
|
C
|
A:ASP456
|
4.9
|
33.2
|
1.0
|
CA
|
A:ASP456
|
4.9
|
37.5
|
1.0
|
HD1
|
A:HIS482
|
5.0
|
37.2
|
0.0
|
CA
|
A:ALA335
|
5.0
|
44.2
|
1.0
|
|
Zinc binding site 2 out
of 2 in 8r72
Go back to
Zinc Binding Sites List in 8r72
Zinc binding site 2 out
of 2 in the Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Polysaccharide Lyase BTPL33HA (BT4410) Y291A with Ha DP4 Collected at 1.33 A within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn701
b:45.8
occ:1.00
|
HE2
|
B:HIS482
|
1.1
|
39.4
|
0.0
|
HD1
|
B:HIS438
|
1.3
|
63.8
|
0.0
|
NE2
|
B:HIS482
|
1.9
|
39.4
|
1.0
|
ND1
|
B:HIS438
|
2.1
|
65.0
|
1.0
|
O
|
B:HOH802
|
2.1
|
30.5
|
1.0
|
OD1
|
B:ASP456
|
2.2
|
45.2
|
1.0
|
O
|
B:HOH803
|
2.5
|
88.0
|
1.0
|
O
|
B:HOH801
|
2.6
|
38.7
|
1.0
|
CE1
|
B:HIS482
|
2.7
|
44.3
|
1.0
|
CE1
|
B:HIS438
|
2.8
|
65.9
|
1.0
|
HE1
|
B:HIS438
|
2.8
|
66.3
|
1.0
|
HE1
|
B:HIS482
|
2.9
|
43.3
|
1.0
|
CD2
|
B:HIS482
|
2.9
|
42.8
|
1.0
|
CG
|
B:ASP456
|
3.2
|
45.6
|
1.0
|
HD2
|
B:HIS482
|
3.2
|
42.4
|
1.0
|
CG
|
B:HIS438
|
3.3
|
60.2
|
1.0
|
HB3
|
B:HIS438
|
3.5
|
56.6
|
1.0
|
OD2
|
B:ASP456
|
3.5
|
51.4
|
1.0
|
CB
|
B:HIS438
|
3.8
|
57.2
|
1.0
|
HB2
|
B:HIS438
|
3.8
|
56.5
|
1.0
|
ND1
|
B:HIS482
|
3.9
|
44.9
|
1.0
|
H
|
B:GLY458
|
3.9
|
48.5
|
1.0
|
O
|
B:THR476
|
3.9
|
47.0
|
1.0
|
O
|
B:ALA335
|
4.0
|
67.5
|
1.0
|
CG
|
B:HIS482
|
4.0
|
44.6
|
1.0
|
NE2
|
B:HIS438
|
4.0
|
68.9
|
1.0
|
H
|
B:ALA335
|
4.1
|
55.7
|
1.0
|
OD2
|
B:ASP440
|
4.2
|
39.0
|
1.0
|
CD2
|
B:HIS438
|
4.2
|
65.3
|
1.0
|
HB3
|
B:ASP440
|
4.3
|
49.2
|
1.0
|
H
|
B:ALA457
|
4.3
|
45.8
|
1.0
|
CB
|
B:ASP456
|
4.5
|
45.1
|
1.0
|
N
|
B:ALA335
|
4.5
|
56.3
|
1.0
|
HA2
|
B:GLY458
|
4.6
|
54.6
|
1.0
|
HA
|
B:ALA335
|
4.6
|
54.7
|
1.0
|
HA
|
B:PHE334
|
4.6
|
58.2
|
1.0
|
HB3
|
B:ASP456
|
4.7
|
45.7
|
1.0
|
N
|
B:GLY458
|
4.7
|
48.4
|
1.0
|
HD1
|
B:HIS482
|
4.7
|
45.3
|
0.0
|
C
|
B:ALA335
|
4.7
|
60.8
|
1.0
|
HA
|
B:ASP456
|
4.7
|
46.0
|
1.0
|
N
|
B:ALA457
|
4.8
|
45.1
|
1.0
|
HE2
|
B:HIS438
|
4.8
|
70.2
|
0.0
|
HB3
|
B:ALA457
|
4.8
|
47.9
|
1.0
|
O
|
B:ASN333
|
4.8
|
55.7
|
1.0
|
CA
|
B:ALA335
|
4.9
|
53.2
|
1.0
|
CB
|
B:ASP440
|
5.0
|
48.0
|
1.0
|
CA
|
B:ASP456
|
5.0
|
47.0
|
1.0
|
HB2
|
B:ASP440
|
5.0
|
49.2
|
1.0
|
|
Reference:
A.Cartmell,
M.Couturier.
Polysaccharide Lyase Family 33 Utilises An Evolutionary Conserved Mechanism of Conformationally Induced Catalysis to Drive Processivity To Be Published.
Page generated: Tue Dec 10 21:50:55 2024
|