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Iron in PDB 8hn2: Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum

Enzymatic activity of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum

All present enzymatic activity of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum:
7.1.1.6;

Protein crystallography data

The structure of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum, PDB code: 8hn2 was solved by H.Kishimoto, R.Mutoh, H.Tanaka, G.Kurisu, H.Oh-Oka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 60.55 / 2.30
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 130.64, 58.695, 49.68, 90, 112.04, 90
R / Rfree (%) 20.1 / 23.6

Other elements in 8hn2:

The structure of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum also contains other interesting chemical elements:

Sodium (Na) 25 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum (pdb code 8hn2). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum, PDB code: 8hn2:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 8hn2

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Iron binding site 1 out of 4 in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:73.3
occ:1.00
 FE1 A:FES201 0.0 73.3 1.0
SG A:CYS124 2.2 63.0 1.0
SG A:CYS142 2.2 63.5 1.0
S1 A:FES201 2.2 71.4 1.0
S2 A:FES201 2.3 66.6 1.0
FE2 A:FES201 2.9 69.0 1.0
CB A:CYS124 3.0 58.7 1.0
CB A:CYS142 3.5 58.1 1.0
CB A:ALA147 4.2 43.9 1.0
CB A:HIS126 4.2 89.1 1.0
CB A:CYS144 4.3 58.7 1.0
CA A:CYS124 4.3 56.2 1.0
N A:HIS145 4.4 69.2 1.0
ND1 A:HIS145 4.8 64.4 1.0
ND1 A:HIS126 4.8 101.8 1.0
CB A:CYS129 4.8 63.2 1.0
CA A:CYS142 4.9 50.6 1.0
N A:LEU127 5.0 85.8 1.0

Iron binding site 2 out of 4 in 8hn2

Go back to Iron Binding Sites List in 8hn2
Iron binding site 2 out of 4 in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:69.0
occ:1.00
 FE2 A:FES201 0.0 69.0 1.0
S2 A:FES201 2.2 66.6 1.0
S1 A:FES201 2.3 71.4 1.0
ND1 A:HIS145 2.4 64.4 1.0
ND1 A:HIS126 2.4 101.8 1.0
FE1 A:FES201 2.9 73.3 1.0
CG A:HIS126 3.2 103.0 1.0
CE1 A:HIS145 3.3 61.6 1.0
CG A:HIS145 3.3 69.5 1.0
CB A:HIS126 3.4 89.1 1.0
CE1 A:HIS126 3.4 111.6 1.0
CB A:HIS145 3.6 68.7 1.0
N A:HIS145 4.0 69.2 1.0
N A:LEU127 4.1 85.8 1.0
SG A:CYS124 4.2 63.0 1.0
CB A:CYS144 4.3 58.7 1.0
NE2 A:HIS145 4.4 76.0 1.0
CA A:HIS145 4.4 62.8 1.0
CG A:LEU127 4.4 78.5 1.0
CD2 A:HIS145 4.4 66.2 1.0
CD2 A:HIS126 4.4 106.0 1.0
NE2 A:HIS126 4.5 115.2 1.0
CA A:HIS126 4.6 83.3 1.0
CB A:LEU127 4.6 84.7 1.0
CD1 A:LEU127 4.7 82.2 1.0
C A:CYS144 4.7 75.7 1.0
C A:HIS126 4.8 85.0 1.0
SG A:CYS142 4.8 63.5 1.0
CA A:LEU127 5.0 82.4 1.0
CG A:PRO159 5.0 60.1 1.0

Iron binding site 3 out of 4 in 8hn2

Go back to Iron Binding Sites List in 8hn2
Iron binding site 3 out of 4 in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:45.9
occ:1.00
 FE1 B:FES201 0.0 45.9 1.0
S1 B:FES201 2.2 46.0 1.0
SG B:CYS124 2.2 52.3 1.0
SG B:CYS142 2.2 46.3 1.0
S2 B:FES201 2.3 56.4 1.0
FE2 B:FES201 2.8 55.5 1.0
CB B:CYS142 3.0 50.2 1.0
CB B:CYS124 3.1 45.5 1.0
CB B:ALA147 3.9 42.0 1.0
CB B:HIS126 4.3 55.7 1.0
CA B:CYS142 4.5 43.4 1.0
N B:HIS145 4.5 55.3 1.0
CB B:CYS144 4.5 44.8 1.0
ND1 B:HIS126 4.6 62.5 1.0
CA B:CYS124 4.6 41.5 1.0
CB B:CYS129 4.7 50.1 1.0
C B:CYS142 4.8 49.3 1.0
ND1 B:HIS145 4.8 61.3 1.0
N B:ALA147 4.8 41.6 1.0
O B:CYS142 4.9 45.2 1.0
N B:LEU127 4.9 58.3 1.0
CG B:HIS126 5.0 64.8 1.0
N B:CYS144 5.0 51.7 1.0

Iron binding site 4 out of 4 in 8hn2

Go back to Iron Binding Sites List in 8hn2
Iron binding site 4 out of 4 in the Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Selenomethionine-Labelled Soluble Domain of Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:55.5
occ:1.00
 FE2 B:FES201 0.0 55.5 1.0
S2 B:FES201 2.2 56.4 1.0
S1 B:FES201 2.3 46.0 1.0
ND1 B:HIS126 2.3 62.5 1.0
ND1 B:HIS145 2.3 61.3 1.0
FE1 B:FES201 2.8 45.9 1.0
CE1 B:HIS145 3.2 53.6 1.0
CE1 B:HIS126 3.2 51.4 1.0
CG B:HIS126 3.3 64.8 1.0
CG B:HIS145 3.3 61.1 1.0
CB B:HIS126 3.6 55.7 1.0
CB B:HIS145 3.6 53.6 1.0
N B:HIS145 3.8 55.3 1.0
N B:LEU127 4.1 58.3 1.0
CB B:CYS144 4.2 44.8 1.0
CA B:HIS145 4.2 57.7 1.0
SG B:CYS124 4.3 52.3 1.0
NE2 B:HIS126 4.3 58.8 1.0
CB B:LEU127 4.3 65.4 1.0
NE2 B:HIS145 4.4 68.9 1.0
CD2 B:HIS126 4.4 61.1 1.0
CD2 B:HIS145 4.4 62.6 1.0
SG B:CYS142 4.5 46.3 1.0
CG B:LEU127 4.7 68.1 1.0
CA B:HIS126 4.8 56.7 1.0
CG B:PRO159 4.8 50.3 1.0
CA B:LEU127 4.8 57.4 1.0
C B:CYS144 4.8 62.6 1.0
C B:HIS145 4.9 48.7 1.0
CD1 B:LEU127 4.9 67.9 1.0
C B:HIS126 4.9 61.2 1.0

Reference:

H.Kishimoto, C.Azai, T.Yamamoto, R.Mutoh, T.Nakaniwa, H.Tanaka, Y.Miyanoiri, G.Kurisu, H.Oh-Oka. Soluble Domains of Cytochrome C-556 and Rieske Iron-Sulfur Protein From Chlorobaculum Tepidum: Crystal Structures and Interaction Analysis. Curr Res Struct Biol V. 5 00101 2023.
ISSN: ESSN 2665-928X
PubMed: 37180033
DOI: 10.1016/J.CRSTBI.2023.100101
Page generated: Sat Aug 10 05:23:33 2024

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