Zinc in PDB 1y7p: 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator
Protein crystallography data
The structure of 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator, PDB code: 1y7p
was solved by
R.Zhang,
T.Skarina,
A.Savchenko,
A.Edwards,
A.Joachimiak,
Midwest Center For Structural Genomics (Mcsg),
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
36.34 /
1.90
|
Space group
|
P 41 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
95.709,
95.709,
167.551,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
21.1 /
25.5
|
Zinc Binding Sites:
The binding sites of Zinc atom in the 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator
(pdb code 1y7p). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the
1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator, PDB code: 1y7p:
Jump to Zinc binding site number:
1;
2;
3;
Zinc binding site 1 out
of 3 in 1y7p
Go back to
Zinc Binding Sites List in 1y7p
Zinc binding site 1 out
of 3 in the 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn301
b:44.3
occ:1.00
|
O
|
A:PHE209
|
2.6
|
26.3
|
1.0
|
O
|
A:SER204
|
2.7
|
37.1
|
1.0
|
O
|
A:MET201
|
2.7
|
21.7
|
1.0
|
O
|
A:ALA207
|
2.8
|
47.9
|
1.0
|
O
|
A:HOH420
|
3.0
|
38.2
|
1.0
|
O
|
A:HIS202
|
3.1
|
25.3
|
1.0
|
C
|
A:HIS202
|
3.6
|
24.5
|
1.0
|
C
|
A:ALA207
|
3.8
|
48.5
|
1.0
|
C
|
A:PHE209
|
3.8
|
28.3
|
1.0
|
C
|
A:SER204
|
3.8
|
38.3
|
1.0
|
C
|
A:MET201
|
3.9
|
21.5
|
1.0
|
CA
|
A:HIS202
|
3.9
|
22.2
|
1.0
|
O
|
A:HOH471
|
4.2
|
58.3
|
1.0
|
CB
|
A:ALA207
|
4.3
|
49.6
|
1.0
|
N
|
A:PHE209
|
4.4
|
35.2
|
1.0
|
N
|
A:HIS202
|
4.4
|
21.2
|
1.0
|
N
|
A:SER204
|
4.4
|
31.7
|
1.0
|
CA
|
A:ALA207
|
4.4
|
48.8
|
1.0
|
C
|
A:LYS208
|
4.5
|
41.0
|
1.0
|
N
|
A:ALA207
|
4.6
|
49.7
|
1.0
|
CA
|
A:SER204
|
4.6
|
35.5
|
1.0
|
N
|
A:ILE203
|
4.6
|
25.1
|
1.0
|
C
|
A:ILE203
|
4.6
|
29.2
|
1.0
|
CA
|
A:PHE209
|
4.6
|
29.6
|
1.0
|
N
|
A:LYS208
|
4.7
|
46.8
|
1.0
|
O
|
A:LYS208
|
4.8
|
40.2
|
1.0
|
N
|
A:ASP210
|
4.8
|
27.2
|
1.0
|
N
|
A:GLU205
|
4.8
|
41.8
|
1.0
|
O
|
A:ILE203
|
4.9
|
30.4
|
1.0
|
CA
|
A:LYS208
|
4.9
|
44.9
|
1.0
|
CA
|
A:ASP210
|
4.9
|
26.3
|
1.0
|
O
|
A:HOH445
|
4.9
|
54.5
|
1.0
|
CA
|
A:GLU205
|
4.9
|
45.4
|
1.0
|
|
Zinc binding site 2 out
of 3 in 1y7p
Go back to
Zinc Binding Sites List in 1y7p
Zinc binding site 2 out
of 3 in the 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn303
b:45.9
occ:1.00
|
O
|
B:SER204
|
2.5
|
36.1
|
1.0
|
O
|
B:PHE209
|
2.7
|
31.2
|
1.0
|
O
|
B:ALA207
|
2.7
|
41.4
|
1.0
|
O
|
B:MET201
|
2.8
|
22.6
|
1.0
|
O
|
B:HIS202
|
2.8
|
23.3
|
1.0
|
C
|
B:HIS202
|
3.4
|
24.2
|
1.0
|
C
|
B:SER204
|
3.7
|
36.7
|
1.0
|
C
|
B:ALA207
|
3.8
|
42.7
|
1.0
|
CA
|
B:HIS202
|
3.8
|
24.5
|
1.0
|
C
|
B:PHE209
|
3.9
|
32.7
|
1.0
|
C
|
B:MET201
|
3.9
|
23.5
|
1.0
|
N
|
B:PHE209
|
4.3
|
37.4
|
1.0
|
C
|
B:LYS208
|
4.3
|
40.3
|
1.0
|
N
|
B:SER204
|
4.3
|
29.7
|
1.0
|
N
|
B:HIS202
|
4.3
|
24.2
|
1.0
|
C
|
B:ILE203
|
4.4
|
27.6
|
1.0
|
O
|
B:HOH512
|
4.4
|
64.0
|
1.0
|
CB
|
B:ALA207
|
4.4
|
43.2
|
1.0
|
N
|
B:ILE203
|
4.4
|
24.0
|
1.0
|
CA
|
B:SER204
|
4.5
|
33.2
|
1.0
|
O
|
B:LYS208
|
4.5
|
41.3
|
1.0
|
CA
|
B:ALA207
|
4.6
|
43.0
|
1.0
|
O
|
B:ILE203
|
4.6
|
27.2
|
1.0
|
CA
|
B:PHE209
|
4.6
|
34.0
|
1.0
|
N
|
B:LYS208
|
4.6
|
42.6
|
1.0
|
N
|
B:GLU205
|
4.7
|
39.8
|
1.0
|
CA
|
B:LYS208
|
4.7
|
42.4
|
1.0
|
N
|
B:ALA207
|
4.7
|
43.7
|
1.0
|
CA
|
B:GLU205
|
4.8
|
43.3
|
1.0
|
N
|
B:ASP210
|
4.9
|
32.0
|
1.0
|
CB
|
B:SER204
|
4.9
|
32.9
|
1.0
|
CA
|
B:ILE203
|
4.9
|
25.0
|
1.0
|
|
Zinc binding site 3 out
of 3 in 1y7p
Go back to
Zinc Binding Sites List in 1y7p
Zinc binding site 3 out
of 3 in the 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of 1.9 A Crystal Structure of A Protein of Unknown Function AF1403 From Archaeoglobus Fulgidus, Probable Metabolic Regulator within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn302
b:47.6
occ:1.00
|
O
|
C:SER204
|
2.6
|
37.2
|
1.0
|
O
|
C:PHE209
|
2.7
|
35.5
|
1.0
|
O
|
C:MET201
|
2.7
|
26.6
|
1.0
|
O
|
C:ALA207
|
2.7
|
46.5
|
1.0
|
O
|
C:HIS202
|
2.8
|
28.4
|
1.0
|
C
|
C:HIS202
|
3.4
|
28.5
|
1.0
|
C
|
C:ALA207
|
3.6
|
46.7
|
1.0
|
CA
|
C:HIS202
|
3.7
|
27.9
|
1.0
|
C
|
C:SER204
|
3.8
|
37.6
|
1.0
|
C
|
C:MET201
|
3.8
|
27.2
|
1.0
|
C
|
C:PHE209
|
3.8
|
35.1
|
1.0
|
CB
|
C:ALA207
|
4.1
|
46.4
|
1.0
|
C
|
C:LYS208
|
4.2
|
43.6
|
1.0
|
N
|
C:PHE209
|
4.2
|
40.0
|
1.0
|
N
|
C:SER204
|
4.2
|
32.4
|
1.0
|
N
|
C:HIS202
|
4.3
|
26.3
|
1.0
|
CA
|
C:ALA207
|
4.3
|
47.1
|
1.0
|
O
|
C:LYS208
|
4.4
|
43.5
|
1.0
|
N
|
C:ILE203
|
4.5
|
28.6
|
1.0
|
CA
|
C:SER204
|
4.5
|
34.4
|
1.0
|
N
|
C:LYS208
|
4.5
|
46.4
|
1.0
|
C
|
C:ILE203
|
4.5
|
30.4
|
1.0
|
CA
|
C:PHE209
|
4.5
|
36.2
|
1.0
|
N
|
C:ALA207
|
4.6
|
48.6
|
1.0
|
CA
|
C:LYS208
|
4.6
|
46.5
|
1.0
|
CB
|
C:SER204
|
4.8
|
33.4
|
1.0
|
N
|
C:GLU205
|
4.8
|
41.7
|
1.0
|
N
|
C:ASP210
|
4.9
|
34.9
|
1.0
|
CB
|
C:PHE209
|
4.9
|
32.4
|
1.0
|
O
|
C:ILE203
|
4.9
|
30.3
|
1.0
|
|
Reference:
R.Zhang,
T.Skarina,
A.Savchenko,
A.Edwards,
A.Joachimiak,
Midwest Center For Structural Genomics (Mcsg).
1.9A Crystal Structure of A Hypothetical Protein AF1403 From Archaeoglobus Fulgidus To Be Published.
Page generated: Wed Oct 16 20:46:49 2024
|