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Iron in PDB 1p84: Hdbt Inhibited Yeast Cytochrome BC1 Complex

Enzymatic activity of Hdbt Inhibited Yeast Cytochrome BC1 Complex

All present enzymatic activity of Hdbt Inhibited Yeast Cytochrome BC1 Complex:
1.10.2.2;

Protein crystallography data

The structure of Hdbt Inhibited Yeast Cytochrome BC1 Complex, PDB code: 1p84 was solved by H.Palsdottir, C.G.Lojero, B.L.Trumpower, C.Hunte, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 214.998, 165.091, 147.525, 90.00, 117.33, 90.00
R / Rfree (%) 22.8 / 25.2

Iron Binding Sites:

The binding sites of Iron atom in the Hdbt Inhibited Yeast Cytochrome BC1 Complex (pdb code 1p84). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the Hdbt Inhibited Yeast Cytochrome BC1 Complex, PDB code: 1p84:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in 1p84

Go back to Iron Binding Sites List in 1p84
Iron binding site 1 out of 5 in the Hdbt Inhibited Yeast Cytochrome BC1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Hdbt Inhibited Yeast Cytochrome BC1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe701

b:31.0
occ:1.00
 FE C:HEM701 0.0 31.0 1.0
NE2 C:HIS183 1.9 29.0 1.0
NE2 C:HIS82 2.0 30.6 1.0
ND C:HEM701 2.0 29.4 1.0
NC C:HEM701 2.0 30.5 1.0
NA C:HEM701 2.0 28.0 1.0
NB C:HEM701 2.0 29.0 1.0
CE1 C:HIS183 2.8 29.5 1.0
CE1 C:HIS82 2.9 28.6 1.0
C4D C:HEM701 3.0 29.9 1.0
C1A C:HEM701 3.0 30.6 1.0
C1D C:HEM701 3.0 30.5 1.0
C4B C:HEM701 3.0 29.5 1.0
C1C C:HEM701 3.0 31.4 1.0
C4C C:HEM701 3.0 30.9 1.0
CD2 C:HIS82 3.1 29.5 1.0
C4A C:HEM701 3.1 29.4 1.0
C1B C:HEM701 3.1 30.3 1.0
CD2 C:HIS183 3.1 27.1 1.0
CHA C:HEM701 3.4 30.5 1.0
CHC C:HEM701 3.4 31.2 1.0
CHD C:HEM701 3.4 32.8 1.0
CHB C:HEM701 3.5 29.5 1.0
ND1 C:HIS183 4.0 30.6 1.0
ND1 C:HIS82 4.1 29.4 1.0
CG C:HIS183 4.2 29.4 1.0
CG C:HIS82 4.2 30.3 1.0
C3D C:HEM701 4.3 29.1 1.0
C2D C:HEM701 4.3 29.9 1.0
C2A C:HEM701 4.3 29.1 1.0
C3C C:HEM701 4.3 31.1 1.0
C2C C:HEM701 4.3 30.7 1.0
C3B C:HEM701 4.3 33.6 1.0
C3A C:HEM701 4.3 28.5 1.0
C2B C:HEM701 4.3 30.3 1.0
CA C:GLY131 4.7 39.1 1.0

Iron binding site 2 out of 5 in 1p84

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Iron binding site 2 out of 5 in the Hdbt Inhibited Yeast Cytochrome BC1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Hdbt Inhibited Yeast Cytochrome BC1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe702

b:28.8
occ:1.00
 FE C:HEM702 0.0 28.8 1.0
NE2 C:HIS96 2.0 28.2 1.0
ND C:HEM702 2.0 28.8 1.0
NA C:HEM702 2.0 30.9 1.0
NE2 C:HIS197 2.0 28.5 1.0
NB C:HEM702 2.0 30.9 1.0
NC C:HEM702 2.0 30.4 1.0
CE1 C:HIS197 3.0 28.9 1.0
CD2 C:HIS96 3.0 26.6 1.0
C1D C:HEM702 3.0 30.0 1.0
CE1 C:HIS96 3.0 28.0 1.0
C4A C:HEM702 3.0 32.2 1.0
C1B C:HEM702 3.0 31.7 1.0
C4C C:HEM702 3.0 28.4 1.0
C4D C:HEM702 3.1 31.3 1.0
C4B C:HEM702 3.1 32.3 1.0
C1A C:HEM702 3.1 31.4 1.0
C1C C:HEM702 3.1 30.8 1.0
CD2 C:HIS197 3.1 29.5 1.0
CHD C:HEM702 3.4 28.7 1.0
CHB C:HEM702 3.4 29.5 1.0
CHC C:HEM702 3.4 31.0 1.0
CHA C:HEM702 3.4 32.8 1.0
ND1 C:HIS197 4.1 28.8 1.0
ND1 C:HIS96 4.2 25.1 1.0
CG C:HIS96 4.2 27.4 1.0
CG C:HIS197 4.2 30.2 1.0
C2D C:HEM702 4.3 30.4 1.0
C3A C:HEM702 4.3 32.0 1.0
C2A C:HEM702 4.3 30.9 1.0
C2B C:HEM702 4.3 32.4 1.0
C3B C:HEM702 4.3 32.8 1.0
C3D C:HEM702 4.3 31.9 1.0
C3C C:HEM702 4.3 27.7 1.0
C2C C:HEM702 4.3 28.2 1.0
O C:HOH719 4.8 31.5 1.0

Iron binding site 3 out of 5 in 1p84

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Iron binding site 3 out of 5 in the Hdbt Inhibited Yeast Cytochrome BC1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Hdbt Inhibited Yeast Cytochrome BC1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe703

b:48.4
occ:1.00
 FE D:HEM703 0.0 48.4 1.0
NE2 D:HIS105 2.0 51.6 1.0
ND D:HEM703 2.0 45.7 1.0
NC D:HEM703 2.0 50.7 1.0
NB D:HEM703 2.0 49.0 1.0
NA D:HEM703 2.0 47.7 1.0
SD D:MET225 2.1 53.1 1.0
CE1 D:HIS105 3.0 54.2 1.0
CD2 D:HIS105 3.0 53.9 1.0
C1D D:HEM703 3.0 47.8 1.0
C4C D:HEM703 3.0 50.4 1.0
C4D D:HEM703 3.0 46.0 1.0
C1C D:HEM703 3.1 49.6 1.0
C1B D:HEM703 3.1 48.3 1.0
C1A D:HEM703 3.1 45.8 1.0
C4B D:HEM703 3.1 49.5 1.0
C4A D:HEM703 3.1 44.6 1.0
CHD D:HEM703 3.4 49.1 1.0
CHA D:HEM703 3.4 45.4 1.0
CHB D:HEM703 3.4 46.6 1.0
CHC D:HEM703 3.4 48.5 1.0
CE D:MET225 3.5 51.1 1.0
CG D:MET225 3.6 54.0 1.0
ND1 D:HIS105 4.1 54.7 1.0
CG D:HIS105 4.1 53.8 1.0
C2D D:HEM703 4.2 47.5 1.0
C3D D:HEM703 4.2 46.9 1.0
C3C D:HEM703 4.3 52.2 1.0
C2C D:HEM703 4.3 51.1 1.0
C2B D:HEM703 4.3 48.1 1.0
C2A D:HEM703 4.3 43.9 1.0
C3B D:HEM703 4.3 50.1 1.0
C3A D:HEM703 4.3 44.0 1.0
CB D:MET225 4.3 56.8 1.0

Iron binding site 4 out of 5 in 1p84

Go back to Iron Binding Sites List in 1p84
Iron binding site 4 out of 5 in the Hdbt Inhibited Yeast Cytochrome BC1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Hdbt Inhibited Yeast Cytochrome BC1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe704

b:42.7
occ:1.00
 FE1 E:FES704 0.0 42.7 1.0
S1 E:FES704 2.1 39.1 1.0
S2 E:FES704 2.2 43.0 1.0
SG E:CYS159 2.2 45.3 1.0
SG E:CYS178 2.2 46.5 1.0
FE2 E:FES704 2.9 44.0 1.0
CB E:CYS178 3.1 46.4 1.0
CB E:CYS159 3.1 42.4 1.0
CB E:HIS161 4.0 39.6 1.0
CB E:CYS180 4.4 40.4 1.0
CA E:CYS178 4.5 44.9 1.0
ND1 E:HIS161 4.5 40.8 1.0
CB E:SER183 4.5 44.1 1.0
OG E:SER183 4.5 43.1 1.0
CA E:CYS159 4.6 42.4 1.0
CB E:CYS164 4.6 39.0 1.0
N E:HIS181 4.6 45.0 1.0
ND1 E:HIS181 4.7 45.4 1.0
N E:LEU162 4.7 42.0 1.0
N E:CYS164 4.8 38.2 1.0
CG E:HIS161 4.8 39.1 1.0
N E:HIS161 4.9 39.1 1.0
C E:CYS178 4.9 45.0 1.0
O E:CYS178 4.9 46.0 1.0
CA E:HIS161 5.0 40.5 1.0

Iron binding site 5 out of 5 in 1p84

Go back to Iron Binding Sites List in 1p84
Iron binding site 5 out of 5 in the Hdbt Inhibited Yeast Cytochrome BC1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Hdbt Inhibited Yeast Cytochrome BC1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe704

b:44.0
occ:1.00
 FE2 E:FES704 0.0 44.0 1.0
ND1 E:HIS181 2.1 45.4 1.0
ND1 E:HIS161 2.1 40.8 1.0
S2 E:FES704 2.2 43.0 1.0
S1 E:FES704 2.2 39.1 1.0
FE1 E:FES704 2.9 42.7 1.0
CG E:HIS181 3.0 44.7 1.0
CG E:HIS161 3.1 39.1 1.0
CE1 E:HIS161 3.1 39.6 1.0
CB E:HIS181 3.2 45.3 1.0
CE1 E:HIS181 3.2 44.2 1.0
CB E:HIS161 3.3 39.6 1.0
N E:HIS181 3.8 45.0 1.0
N E:LEU162 4.0 42.0 1.0
CA E:HIS181 4.0 45.6 1.0
CD2 E:HIS181 4.2 46.7 1.0
CB E:CYS180 4.2 40.4 1.0
CD2 E:HIS161 4.3 38.5 1.0
NE2 E:HIS181 4.3 45.7 1.0
NE2 E:HIS161 4.3 38.6 1.0
CB E:LEU162 4.3 35.3 1.0
C E:CYS180 4.5 43.7 1.0
SG E:CYS159 4.5 45.3 1.0
SG E:CYS178 4.5 46.5 1.0
CA E:HIS161 4.6 40.5 1.0
CG E:LEU162 4.6 32.4 1.0
CA E:LEU162 4.7 41.7 1.0
C E:HIS161 4.7 42.0 1.0
CG E:PRO195 4.7 45.1 1.0
CD1 E:LEU162 4.8 28.0 1.0
C E:HIS181 4.9 46.4 1.0
CA E:CYS180 4.9 42.0 1.0

Reference:

H.Palsdottir, C.G.Lojero, B.L.Trumpower, C.Hunte. Structure of the Yeast Cytochrome BC1 Complex with A Hydroxyquinone Anion Qo Site Inhibitor Bound J.Biol.Chem. V. 278 31303 2003.
ISSN: ISSN 0021-9258
PubMed: 12782631
DOI: 10.1074/JBC.M302195200
Page generated: Sat Aug 3 13:01:08 2024

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