Chlorine in PDB 5h8y: Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
Enzymatic activity of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
All present enzymatic activity of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal:
1.8.7.1;
Protein crystallography data
The structure of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal, PDB code: 5h8y
was solved by
G.Kurisu,
M.Nakayama,
T.Hase,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
30.07 /
2.20
|
Space group
|
P 61
|
Cell size a, b, c (Å), α, β, γ (°)
|
176.219,
176.219,
195.315,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
21.8 /
24.7
|
Other elements in 5h8y:
The structure of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
(pdb code 5h8y). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the
Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal, PDB code: 5h8y:
Jump to Chlorine binding site number:
1;
2;
3;
4;
Chlorine binding site 1 out
of 4 in 5h8y
Go back to
Chlorine Binding Sites List in 5h8y
Chlorine binding site 1 out
of 4 in the Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl704
b:34.6
occ:1.00
|
FE
|
A:SRM702
|
2.7
|
23.1
|
1.0
|
NC
|
A:SRM702
|
3.2
|
20.5
|
1.0
|
ND
|
A:SRM702
|
3.4
|
24.8
|
1.0
|
NB
|
A:SRM702
|
3.4
|
21.7
|
1.0
|
NZ
|
A:LYS276
|
3.5
|
29.9
|
1.0
|
NA
|
A:SRM702
|
3.6
|
22.5
|
1.0
|
NH1
|
A:ARG193
|
3.7
|
25.2
|
1.0
|
NZ
|
A:LYS278
|
3.7
|
24.6
|
1.0
|
NH1
|
A:ARG124
|
3.7
|
24.4
|
1.0
|
C4B
|
A:SRM702
|
3.7
|
21.0
|
1.0
|
CHC
|
A:SRM702
|
3.8
|
20.3
|
1.0
|
C1C
|
A:SRM702
|
3.8
|
19.7
|
1.0
|
NH2
|
A:ARG124
|
3.9
|
25.6
|
1.0
|
C4D
|
A:SRM702
|
4.0
|
24.6
|
1.0
|
C4C
|
A:SRM702
|
4.1
|
20.6
|
1.0
|
C1D
|
A:SRM702
|
4.2
|
23.1
|
1.0
|
CHA
|
A:SRM702
|
4.2
|
23.7
|
1.0
|
C1A
|
A:SRM702
|
4.2
|
24.2
|
1.0
|
CZ
|
A:ARG124
|
4.3
|
24.5
|
1.0
|
CE
|
A:LYS278
|
4.3
|
22.7
|
1.0
|
C1B
|
A:SRM702
|
4.4
|
20.6
|
1.0
|
CHD
|
A:SRM702
|
4.5
|
21.6
|
1.0
|
C4A
|
A:SRM702
|
4.6
|
23.1
|
1.0
|
CBB
|
A:SRM702
|
4.6
|
23.0
|
1.0
|
CE
|
A:LYS276
|
4.7
|
28.4
|
1.0
|
CD
|
A:LYS276
|
4.7
|
27.5
|
1.0
|
CZ
|
A:ARG193
|
4.8
|
25.6
|
1.0
|
C3B
|
A:SRM702
|
4.8
|
21.0
|
1.0
|
O2B
|
A:SRM702
|
4.8
|
22.9
|
1.0
|
C2C
|
A:SRM702
|
4.9
|
18.8
|
1.0
|
CHB
|
A:SRM702
|
5.0
|
21.6
|
1.0
|
|
Chlorine binding site 2 out
of 4 in 5h8y
Go back to
Chlorine Binding Sites List in 5h8y
Chlorine binding site 2 out
of 4 in the Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl704
b:40.2
occ:1.00
|
FE
|
B:SRM702
|
2.9
|
22.4
|
1.0
|
NH1
|
B:ARG193
|
3.4
|
28.3
|
1.0
|
NC
|
B:SRM702
|
3.4
|
22.2
|
1.0
|
NZ
|
B:LYS276
|
3.5
|
29.1
|
1.0
|
ND
|
B:SRM702
|
3.5
|
23.7
|
1.0
|
NH1
|
B:ARG124
|
3.6
|
25.8
|
1.0
|
NZ
|
B:LYS278
|
3.7
|
21.4
|
1.0
|
NB
|
B:SRM702
|
3.7
|
23.6
|
1.0
|
NA
|
B:SRM702
|
3.8
|
22.3
|
1.0
|
NH2
|
B:ARG124
|
3.9
|
24.5
|
1.0
|
C1C
|
B:SRM702
|
4.0
|
21.7
|
1.0
|
C4B
|
B:SRM702
|
4.0
|
22.5
|
1.0
|
CHC
|
B:SRM702
|
4.0
|
21.6
|
1.0
|
C4D
|
B:SRM702
|
4.1
|
24.3
|
1.0
|
CZ
|
B:ARG124
|
4.2
|
22.8
|
1.0
|
CE
|
B:LYS278
|
4.2
|
21.1
|
1.0
|
C1D
|
B:SRM702
|
4.3
|
24.1
|
1.0
|
C4C
|
B:SRM702
|
4.3
|
21.6
|
1.0
|
CHA
|
B:SRM702
|
4.3
|
23.4
|
1.0
|
C1A
|
B:SRM702
|
4.4
|
22.7
|
1.0
|
CZ
|
B:ARG193
|
4.5
|
26.6
|
1.0
|
CE
|
B:LYS276
|
4.6
|
27.9
|
1.0
|
C1B
|
B:SRM702
|
4.6
|
22.1
|
1.0
|
CD
|
B:LYS276
|
4.6
|
26.5
|
1.0
|
CHD
|
B:SRM702
|
4.7
|
22.9
|
1.0
|
O2B
|
B:SRM702
|
4.7
|
25.7
|
1.0
|
C4A
|
B:SRM702
|
4.7
|
22.6
|
1.0
|
CBB
|
B:SRM702
|
4.8
|
26.4
|
1.0
|
NH2
|
B:ARG193
|
4.8
|
28.2
|
1.0
|
|
Chlorine binding site 3 out
of 4 in 5h8y
Go back to
Chlorine Binding Sites List in 5h8y
Chlorine binding site 3 out
of 4 in the Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl704
b:44.9
occ:1.00
|
FE
|
C:SRM702
|
2.7
|
26.1
|
1.0
|
NC
|
C:SRM702
|
3.2
|
27.4
|
1.0
|
ND
|
C:SRM702
|
3.3
|
30.3
|
1.0
|
NB
|
C:SRM702
|
3.5
|
28.8
|
1.0
|
NZ
|
C:LYS276
|
3.5
|
34.8
|
1.0
|
NA
|
C:SRM702
|
3.6
|
28.1
|
1.0
|
NZ
|
C:LYS278
|
3.7
|
25.9
|
1.0
|
NH1
|
C:ARG193
|
3.7
|
35.1
|
1.0
|
NH1
|
C:ARG124
|
3.7
|
30.9
|
1.0
|
C1C
|
C:SRM702
|
3.7
|
27.3
|
1.0
|
CHC
|
C:SRM702
|
3.8
|
28.9
|
1.0
|
C4B
|
C:SRM702
|
3.8
|
28.0
|
1.0
|
C4D
|
C:SRM702
|
3.8
|
30.8
|
1.0
|
NH2
|
C:ARG124
|
3.9
|
30.1
|
1.0
|
C4C
|
C:SRM702
|
4.1
|
28.0
|
1.0
|
CHA
|
C:SRM702
|
4.1
|
29.9
|
1.0
|
C1D
|
C:SRM702
|
4.1
|
30.1
|
1.0
|
C1A
|
C:SRM702
|
4.2
|
28.4
|
1.0
|
CZ
|
C:ARG124
|
4.3
|
29.9
|
1.0
|
CE
|
C:LYS278
|
4.3
|
25.1
|
1.0
|
C1B
|
C:SRM702
|
4.5
|
27.1
|
1.0
|
CHD
|
C:SRM702
|
4.5
|
28.6
|
1.0
|
C4A
|
C:SRM702
|
4.5
|
26.7
|
1.0
|
CBB
|
C:SRM702
|
4.7
|
31.9
|
1.0
|
CE
|
C:LYS276
|
4.7
|
34.9
|
1.0
|
CD
|
C:LYS276
|
4.7
|
33.3
|
1.0
|
O2B
|
C:SRM702
|
4.8
|
31.0
|
1.0
|
CZ
|
C:ARG193
|
4.8
|
35.2
|
1.0
|
C2C
|
C:SRM702
|
4.9
|
25.9
|
1.0
|
C3B
|
C:SRM702
|
4.9
|
28.2
|
1.0
|
C3D
|
C:SRM702
|
5.0
|
32.5
|
1.0
|
CHB
|
C:SRM702
|
5.0
|
25.6
|
1.0
|
SG
|
C:CYS544
|
5.0
|
25.9
|
1.0
|
|
Chlorine binding site 4 out
of 4 in 5h8y
Go back to
Chlorine Binding Sites List in 5h8y
Chlorine binding site 4 out
of 4 in the Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structure of the Complex Between Maize Sulfite Reductase and Ferredoxin in the Form-2 Crystal within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl704
b:43.8
occ:1.00
|
FE
|
D:SRM702
|
2.7
|
31.8
|
1.0
|
NC
|
D:SRM702
|
3.2
|
31.6
|
1.0
|
ND
|
D:SRM702
|
3.3
|
34.3
|
1.0
|
NB
|
D:SRM702
|
3.5
|
31.7
|
1.0
|
NZ
|
D:LYS276
|
3.5
|
45.4
|
1.0
|
NA
|
D:SRM702
|
3.6
|
32.0
|
1.0
|
NH1
|
D:ARG193
|
3.6
|
36.9
|
1.0
|
NH1
|
D:ARG124
|
3.7
|
40.6
|
1.0
|
C1C
|
D:SRM702
|
3.7
|
31.3
|
1.0
|
C4B
|
D:SRM702
|
3.7
|
33.4
|
1.0
|
NZ
|
D:LYS278
|
3.7
|
31.1
|
1.0
|
CHC
|
D:SRM702
|
3.8
|
32.2
|
1.0
|
NH2
|
D:ARG124
|
3.9
|
38.3
|
1.0
|
C4D
|
D:SRM702
|
3.9
|
32.8
|
1.0
|
C4C
|
D:SRM702
|
4.1
|
31.8
|
1.0
|
CHA
|
D:SRM702
|
4.1
|
32.4
|
1.0
|
C1D
|
D:SRM702
|
4.1
|
34.6
|
1.0
|
C1A
|
D:SRM702
|
4.2
|
33.0
|
1.0
|
CZ
|
D:ARG124
|
4.2
|
39.7
|
1.0
|
CE
|
D:LYS278
|
4.3
|
32.7
|
1.0
|
C1B
|
D:SRM702
|
4.4
|
31.3
|
1.0
|
CHD
|
D:SRM702
|
4.5
|
31.6
|
1.0
|
C4A
|
D:SRM702
|
4.6
|
32.8
|
1.0
|
CE
|
D:LYS276
|
4.7
|
41.0
|
1.0
|
CZ
|
D:ARG193
|
4.7
|
37.5
|
1.0
|
O2B
|
D:SRM702
|
4.8
|
37.8
|
1.0
|
CD
|
D:LYS276
|
4.8
|
40.4
|
1.0
|
C3B
|
D:SRM702
|
4.8
|
35.0
|
1.0
|
C2C
|
D:SRM702
|
4.9
|
27.9
|
1.0
|
CBB
|
D:SRM702
|
4.9
|
39.3
|
1.0
|
NH2
|
D:ARG193
|
5.0
|
35.1
|
1.0
|
CHB
|
D:SRM702
|
5.0
|
32.3
|
1.0
|
C3D
|
D:SRM702
|
5.0
|
36.0
|
1.0
|
|
Reference:
J.Y.Kim,
M.Nakayama,
H.Toyota,
G.Kurisu,
T.Hase.
Structural and Mutational Studies of An Electron Transfer Complex of Maize Sulfite Reductase and Ferredoxin. J.Biochem. V. 160 101 2016.
ISSN: ISSN 0021-924X
PubMed: 26920048
DOI: 10.1093/JB/MVW016
Page generated: Fri Jul 26 08:45:31 2024
|