Molybdenum in PDB 1ogp: The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Enzymatic activity of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
All present enzymatic activity of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals:
1.8.3.1;
Protein crystallography data
The structure of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals, PDB code: 1ogp
was solved by
N.Schrader,
K.Fischer,
K.Theis,
R.R.Mendel,
G.Schwarz,
C.Kisker,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
182.57 /
2.60
|
Space group
|
C 2 2 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
222.918,
351.271,
158.282,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
23.5 /
26.6
|
Other elements in 1ogp:
The structure of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals also contains other interesting chemical elements:
Molybdenum Binding Sites:
The binding sites of Molybdenum atom in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
(pdb code 1ogp). This binding sites where shown within
5.0 Angstroms radius around Molybdenum atom.
In total 6 binding sites of Molybdenum where determined in the
The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals, PDB code: 1ogp:
Jump to Molybdenum binding site number:
1;
2;
3;
4;
5;
6;
Molybdenum binding site 1 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 1 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 1 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mo1394
b:40.7
occ:1.00
|
MOM1
|
A:MTQ1394
|
0.0
|
40.7
|
1.0
|
OM1
|
A:MTQ1394
|
1.7
|
40.4
|
1.0
|
OM2
|
A:MTQ1394
|
1.7
|
35.1
|
1.0
|
S2'
|
A:MTQ1394
|
2.3
|
39.9
|
1.0
|
SG
|
A:CYS98
|
2.3
|
37.8
|
1.0
|
S1'
|
A:MTQ1394
|
2.4
|
33.4
|
1.0
|
C1'
|
A:MTQ1394
|
3.2
|
42.7
|
1.0
|
C2'
|
A:MTQ1394
|
3.4
|
37.6
|
1.0
|
OH
|
A:TYR241
|
3.5
|
55.4
|
1.0
|
CB
|
A:CYS98
|
3.6
|
37.1
|
1.0
|
CA
|
A:CYS98
|
3.8
|
38.4
|
1.0
|
CE1
|
A:TYR241
|
3.8
|
46.7
|
1.0
|
N
|
A:ALA216
|
3.8
|
41.9
|
1.0
|
N
|
A:ALA99
|
3.9
|
40.0
|
1.0
|
CZ
|
A:TYR241
|
3.9
|
52.4
|
1.0
|
CB
|
A:ALA216
|
4.0
|
43.0
|
1.0
|
CA
|
A:ALA216
|
4.2
|
41.8
|
1.0
|
NE
|
A:ARG51
|
4.2
|
47.9
|
1.0
|
C
|
A:CYS98
|
4.3
|
40.8
|
1.0
|
CD
|
A:ARG51
|
4.3
|
47.6
|
1.0
|
CG
|
A:ARG51
|
4.5
|
48.9
|
1.0
|
C
|
A:GLY215
|
4.5
|
42.8
|
1.0
|
C6
|
A:MTQ1394
|
4.6
|
40.2
|
1.0
|
O
|
A:HOH2031
|
4.7
|
60.3
|
1.0
|
N
|
A:GLY100
|
4.7
|
42.9
|
1.0
|
CA
|
A:GLY215
|
4.8
|
40.1
|
1.0
|
CD1
|
A:TYR241
|
4.9
|
43.0
|
1.0
|
CA
|
A:ALA99
|
4.9
|
41.7
|
1.0
|
CB
|
A:ALA99
|
5.0
|
45.1
|
1.0
|
C3'
|
A:MTQ1394
|
5.0
|
38.1
|
1.0
|
|
Molybdenum binding site 2 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 2 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 2 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mo1394
b:45.4
occ:1.00
|
MOM1
|
B:MTQ1394
|
0.0
|
45.4
|
1.0
|
OM2
|
B:MTQ1394
|
1.7
|
41.2
|
1.0
|
OM1
|
B:MTQ1394
|
1.8
|
40.0
|
1.0
|
S2'
|
B:MTQ1394
|
2.2
|
40.4
|
1.0
|
S1'
|
B:MTQ1394
|
2.4
|
36.0
|
1.0
|
SG
|
B:CYS98
|
2.6
|
44.4
|
1.0
|
C1'
|
B:MTQ1394
|
3.2
|
41.5
|
1.0
|
C2'
|
B:MTQ1394
|
3.3
|
36.0
|
1.0
|
CB
|
B:CYS98
|
3.6
|
38.6
|
1.0
|
N
|
B:ALA216
|
3.8
|
41.9
|
1.0
|
CA
|
B:CYS98
|
3.8
|
38.5
|
1.0
|
OH
|
B:TYR241
|
3.9
|
54.3
|
1.0
|
N
|
B:ALA99
|
3.9
|
39.9
|
1.0
|
NE
|
B:ARG51
|
4.1
|
44.8
|
1.0
|
CB
|
B:ALA216
|
4.1
|
41.5
|
1.0
|
CD
|
B:ARG51
|
4.1
|
49.1
|
1.0
|
CA
|
B:ALA216
|
4.1
|
41.8
|
1.0
|
CE1
|
B:TYR241
|
4.2
|
47.6
|
1.0
|
CZ
|
B:TYR241
|
4.2
|
52.4
|
1.0
|
CG
|
B:ARG51
|
4.3
|
48.4
|
1.0
|
C
|
B:CYS98
|
4.3
|
40.6
|
1.0
|
C
|
B:GLY215
|
4.5
|
42.8
|
1.0
|
C6
|
B:MTQ1394
|
4.6
|
39.0
|
1.0
|
CA
|
B:GLY215
|
4.8
|
40.2
|
1.0
|
C3'
|
B:MTQ1394
|
4.8
|
37.3
|
1.0
|
N
|
B:GLY100
|
4.9
|
43.3
|
1.0
|
CB
|
B:ALA99
|
4.9
|
45.2
|
1.0
|
CB
|
B:ARG51
|
4.9
|
46.6
|
1.0
|
CD1
|
B:TYR241
|
5.0
|
43.3
|
1.0
|
|
Molybdenum binding site 3 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 3 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 3 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mo1394
b:51.3
occ:1.00
|
MOM1
|
C:MTQ1394
|
0.0
|
51.3
|
1.0
|
OM2
|
C:MTQ1394
|
1.7
|
40.3
|
1.0
|
OM1
|
C:MTQ1394
|
1.8
|
41.4
|
1.0
|
S2'
|
C:MTQ1394
|
2.2
|
46.3
|
1.0
|
S1'
|
C:MTQ1394
|
2.5
|
44.4
|
1.0
|
SG
|
C:CYS98
|
2.6
|
42.0
|
1.0
|
C1'
|
C:MTQ1394
|
3.3
|
43.8
|
1.0
|
C2'
|
C:MTQ1394
|
3.4
|
39.0
|
1.0
|
OH
|
C:TYR241
|
3.4
|
56.2
|
1.0
|
CB
|
C:CYS98
|
3.6
|
37.3
|
1.0
|
CA
|
C:CYS98
|
3.8
|
38.5
|
1.0
|
N
|
C:ALA216
|
3.8
|
42.0
|
1.0
|
N
|
C:ALA99
|
3.9
|
40.0
|
1.0
|
CE1
|
C:TYR241
|
3.9
|
51.4
|
1.0
|
CZ
|
C:TYR241
|
4.0
|
52.8
|
1.0
|
NE
|
C:ARG51
|
4.1
|
47.8
|
1.0
|
CB
|
C:ALA216
|
4.2
|
43.2
|
1.0
|
CD
|
C:ARG51
|
4.2
|
51.4
|
1.0
|
CA
|
C:ALA216
|
4.2
|
41.8
|
1.0
|
C
|
C:CYS98
|
4.3
|
40.8
|
1.0
|
CG
|
C:ARG51
|
4.3
|
49.1
|
1.0
|
C
|
C:GLY215
|
4.5
|
42.9
|
1.0
|
C6
|
C:MTQ1394
|
4.7
|
39.1
|
1.0
|
N
|
C:GLY100
|
4.7
|
42.9
|
1.0
|
CA
|
C:GLY215
|
4.8
|
40.2
|
1.0
|
CB
|
C:ARG51
|
4.9
|
45.5
|
1.0
|
CA
|
C:ALA99
|
4.9
|
41.6
|
1.0
|
CB
|
C:ALA99
|
5.0
|
45.7
|
1.0
|
C3'
|
C:MTQ1394
|
5.0
|
37.8
|
1.0
|
|
Molybdenum binding site 4 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 4 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 4 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mo1394
b:51.1
occ:1.00
|
MOM1
|
D:MTQ1394
|
0.0
|
51.1
|
1.0
|
OM1
|
D:MTQ1394
|
1.7
|
43.1
|
1.0
|
OM2
|
D:MTQ1394
|
1.7
|
39.3
|
1.0
|
SG
|
D:CYS98
|
2.0
|
38.8
|
1.0
|
S1'
|
D:MTQ1394
|
2.3
|
42.2
|
1.0
|
S2'
|
D:MTQ1394
|
2.3
|
47.2
|
1.0
|
C1'
|
D:MTQ1394
|
3.2
|
43.3
|
1.0
|
OH
|
D:TYR241
|
3.3
|
57.3
|
1.0
|
C2'
|
D:MTQ1394
|
3.3
|
37.1
|
1.0
|
CB
|
D:CYS98
|
3.5
|
43.8
|
1.0
|
N
|
D:ALA216
|
3.7
|
41.9
|
1.0
|
CA
|
D:CYS98
|
3.7
|
38.8
|
1.0
|
N
|
D:ALA99
|
3.8
|
40.1
|
1.0
|
CE1
|
D:TYR241
|
3.8
|
48.2
|
1.0
|
CZ
|
D:TYR241
|
3.8
|
52.4
|
1.0
|
CA
|
D:ALA216
|
4.1
|
42.1
|
1.0
|
NE
|
D:ARG51
|
4.2
|
48.4
|
1.0
|
CB
|
D:ALA216
|
4.2
|
42.0
|
1.0
|
C
|
D:CYS98
|
4.2
|
40.7
|
1.0
|
CD
|
D:ARG51
|
4.3
|
45.9
|
1.0
|
CG
|
D:ARG51
|
4.3
|
48.7
|
1.0
|
C
|
D:GLY215
|
4.4
|
42.9
|
1.0
|
C6
|
D:MTQ1394
|
4.6
|
39.0
|
1.0
|
CA
|
D:GLY215
|
4.7
|
40.0
|
1.0
|
CB
|
D:ALA99
|
4.8
|
44.1
|
1.0
|
N
|
D:GLY100
|
4.8
|
42.6
|
1.0
|
CD1
|
D:TYR241
|
4.8
|
46.4
|
1.0
|
CE2
|
D:TYR241
|
4.9
|
43.2
|
1.0
|
CA
|
D:ALA99
|
4.9
|
41.6
|
1.0
|
C3'
|
D:MTQ1394
|
4.9
|
41.6
|
1.0
|
|
Molybdenum binding site 5 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 5 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 5 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mo1394
b:38.8
occ:1.00
|
MOM1
|
E:MTQ1394
|
0.0
|
38.8
|
1.0
|
OM2
|
E:MTQ1394
|
1.7
|
33.0
|
1.0
|
OM1
|
E:MTQ1394
|
1.7
|
37.0
|
1.0
|
S2'
|
E:MTQ1394
|
2.2
|
37.8
|
1.0
|
S1'
|
E:MTQ1394
|
2.3
|
29.8
|
1.0
|
SG
|
E:CYS98
|
2.4
|
38.5
|
1.0
|
C1'
|
E:MTQ1394
|
3.2
|
41.5
|
1.0
|
C2'
|
E:MTQ1394
|
3.3
|
36.7
|
1.0
|
CB
|
E:CYS98
|
3.5
|
36.6
|
1.0
|
OH
|
E:TYR241
|
3.7
|
54.7
|
1.0
|
CA
|
E:CYS98
|
3.8
|
38.4
|
1.0
|
N
|
E:ALA216
|
3.8
|
42.0
|
1.0
|
N
|
E:ALA99
|
3.9
|
39.6
|
1.0
|
CE1
|
E:TYR241
|
4.0
|
46.0
|
1.0
|
CB
|
E:ALA216
|
4.1
|
40.0
|
1.0
|
CZ
|
E:TYR241
|
4.1
|
50.8
|
1.0
|
CA
|
E:ALA216
|
4.2
|
41.8
|
1.0
|
NE
|
E:ARG51
|
4.2
|
47.4
|
1.0
|
CD
|
E:ARG51
|
4.3
|
45.3
|
1.0
|
CG
|
E:ARG51
|
4.3
|
47.4
|
1.0
|
C
|
E:CYS98
|
4.3
|
40.6
|
1.0
|
C
|
E:GLY215
|
4.5
|
42.5
|
1.0
|
C6
|
E:MTQ1394
|
4.7
|
36.3
|
1.0
|
N
|
E:GLY100
|
4.8
|
42.8
|
1.0
|
CA
|
E:GLY215
|
4.8
|
40.0
|
1.0
|
C3'
|
E:MTQ1394
|
4.9
|
37.8
|
1.0
|
CB
|
E:ALA99
|
4.9
|
44.3
|
1.0
|
CA
|
E:ALA99
|
4.9
|
41.5
|
1.0
|
|
Molybdenum binding site 6 out
of 6 in 1ogp
Go back to
Molybdenum Binding Sites List in 1ogp
Molybdenum binding site 6 out
of 6 in the The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals
Mono view
Stereo pair view
|
A full contact list of Molybdenum with other atoms in the Mo binding
site number 6 of The Crystal Structure of Plant Sulfite Oxidase Provides Insight Into Sulfite Oxidation in Plants and Animals within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mo1394
b:40.6
occ:1.00
|
MOM1
|
F:MTQ1394
|
0.0
|
40.6
|
1.0
|
OM2
|
F:MTQ1394
|
1.7
|
38.1
|
1.0
|
OM1
|
F:MTQ1394
|
1.8
|
40.2
|
1.0
|
S2'
|
F:MTQ1394
|
2.2
|
32.2
|
1.0
|
SG
|
F:CYS98
|
2.3
|
38.0
|
1.0
|
S1'
|
F:MTQ1394
|
2.4
|
33.2
|
1.0
|
C1'
|
F:MTQ1394
|
3.2
|
40.2
|
1.0
|
C2'
|
F:MTQ1394
|
3.3
|
35.2
|
1.0
|
CB
|
F:CYS98
|
3.5
|
37.5
|
1.0
|
OH
|
F:TYR241
|
3.7
|
55.3
|
1.0
|
CA
|
F:CYS98
|
3.8
|
38.5
|
1.0
|
N
|
F:ALA216
|
3.9
|
42.0
|
1.0
|
CE1
|
F:TYR241
|
3.9
|
48.2
|
1.0
|
N
|
F:ALA99
|
3.9
|
39.8
|
1.0
|
CZ
|
F:TYR241
|
4.1
|
53.8
|
1.0
|
NE
|
F:ARG51
|
4.2
|
45.9
|
1.0
|
CB
|
F:ALA216
|
4.2
|
40.0
|
1.0
|
CG
|
F:ARG51
|
4.2
|
47.8
|
1.0
|
CA
|
F:ALA216
|
4.2
|
41.6
|
1.0
|
CD
|
F:ARG51
|
4.2
|
48.4
|
1.0
|
C
|
F:CYS98
|
4.3
|
40.5
|
1.0
|
C
|
F:GLY215
|
4.6
|
42.7
|
1.0
|
C6
|
F:MTQ1394
|
4.6
|
38.9
|
1.0
|
O
|
F:HOH2111
|
4.6
|
50.6
|
1.0
|
N
|
F:GLY100
|
4.7
|
42.8
|
1.0
|
CA
|
F:GLY215
|
4.8
|
39.8
|
1.0
|
C3'
|
F:MTQ1394
|
4.9
|
38.3
|
1.0
|
CB
|
F:ARG51
|
4.9
|
46.9
|
1.0
|
CB
|
F:ALA99
|
5.0
|
44.0
|
1.0
|
CA
|
F:ALA99
|
5.0
|
41.4
|
1.0
|
CD1
|
F:TYR241
|
5.0
|
41.6
|
1.0
|
|
Reference:
N.Schrader,
K.Fischer,
K.Theis,
R.R.Mendel,
G.Schwarz,
C.Kisker.
The Crystal Structure of Plant Sulfite Oxidase Provides Insights Into Sulfite Oxidation in Plants and Animals Structure V. 11 1251 2003.
ISSN: ISSN 0969-2126
PubMed: 14527393
DOI: 10.1016/J.STR.2003.09.001
Page generated: Sun Oct 6 15:28:45 2024
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