Iron in PDB 8x9v: Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
Protein crystallography data
The structure of Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof, PDB code: 8x9v
was solved by
L.Li,
T.Ran,
W.Wang,
F.Zhang,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
28.84 /
2.36
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
92.2,
99.91,
147.77,
90,
90,
90
|
R / Rfree (%)
|
19.2 /
24.8
|
Iron Binding Sites:
The binding sites of Iron atom in the Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
(pdb code 8x9v). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the
Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof, PDB code: 8x9v:
Jump to Iron binding site number:
1;
2;
3;
4;
Iron binding site 1 out
of 4 in 8x9v
Go back to
Iron Binding Sites List in 8x9v
Iron binding site 1 out
of 4 in the Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
O:Fe201
b:51.5
occ:1.00
|
FE1
|
O:FES201
|
0.0
|
51.5
|
1.0
|
S1
|
O:FES201
|
2.2
|
49.8
|
1.0
|
S2
|
O:FES201
|
2.2
|
48.1
|
1.0
|
SG
|
O:CYS105
|
2.3
|
50.8
|
1.0
|
SG
|
O:CYS100
|
2.5
|
50.5
|
1.0
|
FE2
|
O:FES201
|
2.8
|
46.1
|
1.0
|
CB
|
O:CYS100
|
3.4
|
49.1
|
1.0
|
CB
|
O:CYS105
|
3.4
|
49.4
|
1.0
|
N
|
O:CYS105
|
3.9
|
49.3
|
1.0
|
CA
|
O:CYS105
|
4.3
|
52.3
|
1.0
|
N
|
O:LEU143
|
4.6
|
48.5
|
1.0
|
CB
|
O:ASN102
|
4.6
|
50.8
|
1.0
|
N
|
O:ASN102
|
4.6
|
53.4
|
1.0
|
SD
|
O:MET151
|
4.7
|
57.4
|
1.0
|
O
|
O:ASN102
|
4.7
|
52.7
|
1.0
|
CA
|
O:CYS100
|
4.7
|
55.9
|
1.0
|
CG
|
O:MET151
|
4.7
|
51.9
|
1.0
|
CA
|
O:CYS146
|
4.7
|
46.8
|
1.0
|
SG
|
O:CYS142
|
4.8
|
48.5
|
1.0
|
CA
|
O:CYS142
|
4.8
|
51.6
|
1.0
|
SG
|
O:CYS146
|
4.8
|
47.9
|
1.0
|
C
|
O:CYS100
|
4.8
|
47.9
|
1.0
|
C
|
O:ASN102
|
4.8
|
49.2
|
1.0
|
CA
|
O:ASN102
|
4.9
|
50.0
|
1.0
|
CB
|
O:SER104
|
5.0
|
49.2
|
1.0
|
CB
|
O:CYS146
|
5.0
|
53.5
|
1.0
|
O
|
O:CYS100
|
5.0
|
46.6
|
1.0
|
C
|
O:SER104
|
5.0
|
49.1
|
1.0
|
|
Iron binding site 2 out
of 4 in 8x9v
Go back to
Iron Binding Sites List in 8x9v
Iron binding site 2 out
of 4 in the Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
O:Fe201
b:46.1
occ:1.00
|
FE2
|
O:FES201
|
0.0
|
46.1
|
1.0
|
S2
|
O:FES201
|
2.2
|
48.1
|
1.0
|
S1
|
O:FES201
|
2.2
|
49.8
|
1.0
|
SG
|
O:CYS146
|
2.2
|
47.9
|
1.0
|
SG
|
O:CYS142
|
2.5
|
48.5
|
1.0
|
FE1
|
O:FES201
|
2.8
|
51.5
|
1.0
|
CB
|
O:CYS146
|
3.2
|
53.5
|
1.0
|
CB
|
O:CYS142
|
3.5
|
49.3
|
1.0
|
CA
|
O:CYS146
|
3.6
|
46.8
|
1.0
|
N
|
O:CYS146
|
3.8
|
45.7
|
1.0
|
N
|
O:ALA144
|
4.1
|
49.4
|
1.0
|
N
|
O:LEU143
|
4.1
|
48.5
|
1.0
|
CA
|
O:CYS142
|
4.1
|
51.6
|
1.0
|
N
|
O:ALA145
|
4.2
|
49.0
|
1.0
|
N
|
F:GLY103
|
4.3
|
53.0
|
1.0
|
C
|
O:CYS142
|
4.4
|
52.6
|
1.0
|
SG
|
O:CYS100
|
4.5
|
50.5
|
1.0
|
C
|
O:ALA145
|
4.5
|
50.7
|
1.0
|
CA
|
O:ALA144
|
4.6
|
45.2
|
1.0
|
OG
|
O:SER104
|
4.6
|
58.3
|
1.0
|
CB
|
O:SER104
|
4.8
|
49.2
|
1.0
|
SG
|
O:CYS105
|
4.8
|
50.8
|
1.0
|
C
|
O:ALA144
|
4.8
|
47.3
|
1.0
|
CA
|
F:GLY103
|
4.8
|
46.6
|
1.0
|
C
|
O:LEU143
|
4.9
|
50.0
|
1.0
|
CA
|
O:ALA145
|
5.0
|
48.2
|
1.0
|
|
Iron binding site 3 out
of 4 in 8x9v
Go back to
Iron Binding Sites List in 8x9v
Iron binding site 3 out
of 4 in the Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe201
b:51.4
occ:1.00
|
FE1
|
D:FES201
|
0.0
|
51.4
|
1.0
|
S2
|
D:FES201
|
2.2
|
49.1
|
1.0
|
S1
|
D:FES201
|
2.2
|
47.8
|
1.0
|
SG
|
D:CYS105
|
2.3
|
48.9
|
1.0
|
SG
|
D:CYS100
|
2.5
|
50.9
|
1.0
|
FE2
|
D:FES201
|
2.9
|
45.3
|
1.0
|
CB
|
D:CYS100
|
3.3
|
47.6
|
1.0
|
CB
|
D:CYS105
|
3.4
|
47.5
|
1.0
|
N
|
D:CYS105
|
3.9
|
43.0
|
1.0
|
CA
|
D:CYS105
|
4.2
|
47.7
|
1.0
|
CG
|
D:MET151
|
4.3
|
44.5
|
1.0
|
N
|
D:LEU143
|
4.5
|
46.9
|
1.0
|
O
|
D:ASN102
|
4.6
|
49.8
|
1.0
|
SD
|
D:MET151
|
4.6
|
59.3
|
1.0
|
CA
|
D:CYS100
|
4.6
|
47.9
|
1.0
|
CA
|
D:CYS142
|
4.7
|
49.2
|
1.0
|
N
|
D:ASN102
|
4.7
|
47.9
|
1.0
|
SG
|
D:CYS146
|
4.7
|
47.8
|
1.0
|
SG
|
D:CYS142
|
4.7
|
76.1
|
1.0
|
C
|
D:CYS100
|
4.8
|
48.5
|
1.0
|
CB
|
D:ASN102
|
4.8
|
50.5
|
1.0
|
CB
|
D:CYS142
|
4.8
|
49.6
|
1.0
|
CA
|
D:CYS146
|
4.8
|
51.0
|
1.0
|
C
|
D:ASN102
|
4.8
|
51.7
|
1.0
|
O
|
D:CYS100
|
5.0
|
46.6
|
1.0
|
|
Iron binding site 4 out
of 4 in 8x9v
Go back to
Iron Binding Sites List in 8x9v
Iron binding site 4 out
of 4 in the Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Crystal Structure of Xanthomonas Oryzae Pv. Oryzae Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe201
b:45.3
occ:1.00
|
FE2
|
D:FES201
|
0.0
|
45.3
|
1.0
|
S1
|
D:FES201
|
2.2
|
47.8
|
1.0
|
S2
|
D:FES201
|
2.2
|
49.1
|
1.0
|
SG
|
D:CYS142
|
2.2
|
76.1
|
1.0
|
SG
|
D:CYS146
|
2.3
|
47.8
|
1.0
|
FE1
|
D:FES201
|
2.9
|
51.4
|
1.0
|
CB
|
D:CYS142
|
3.1
|
49.6
|
1.0
|
CB
|
D:CYS146
|
3.5
|
51.2
|
1.0
|
CA
|
D:CYS142
|
3.8
|
49.2
|
1.0
|
CA
|
D:CYS146
|
3.8
|
51.0
|
1.0
|
N
|
D:LEU143
|
3.9
|
46.9
|
1.0
|
N
|
D:CYS146
|
3.9
|
46.5
|
1.0
|
N
|
D:ALA144
|
4.1
|
45.0
|
1.0
|
C
|
D:CYS142
|
4.2
|
48.1
|
1.0
|
N
|
C:GLY103
|
4.3
|
47.8
|
1.0
|
SG
|
D:CYS100
|
4.3
|
50.9
|
1.0
|
N
|
D:ALA145
|
4.3
|
50.5
|
1.0
|
C
|
D:ALA145
|
4.7
|
45.7
|
1.0
|
CA
|
D:ALA144
|
4.7
|
48.8
|
1.0
|
OG
|
D:SER104
|
4.8
|
50.6
|
1.0
|
CB
|
D:SER104
|
4.9
|
47.8
|
1.0
|
C
|
D:LEU143
|
4.9
|
50.1
|
1.0
|
SG
|
D:CYS105
|
4.9
|
48.9
|
1.0
|
CA
|
D:LEU143
|
4.9
|
53.8
|
1.0
|
CA
|
C:GLY103
|
5.0
|
46.4
|
1.0
|
|
Reference:
L.Li,
T.Ran,
W.Wang,
F.Zhang.
Nadh-Quinone Oxidoreductase Subunits Nuoe and Nuof To Be Published.
Page generated: Tue Dec 10 20:11:49 2024
|