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Iron in PDB 1zoy: Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms

Enzymatic activity of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms

All present enzymatic activity of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms:
1.3.5.1;

Protein crystallography data

The structure of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms, PDB code: 1zoy was solved by F.Sun, X.Huo, Y.Zhai, A.Wang, J.Xu, D.Su, M.Bartlam, Z.Rao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 70.238, 83.557, 293.896, 90.00, 90.00, 90.00
R / Rfree (%) 21.3 / 25.9

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms (pdb code 1zoy). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms, PDB code: 1zoy:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 10 in 1zoy

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Iron binding site 1 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


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 Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:52.1
occ:1.00
 FE1 B:FES302 0.0 52.1 1.0
S2 B:FES302 2.0 55.6 1.0
S1 B:FES302 2.3 46.8 1.0
SG B:CYS73 2.3 67.7 1.0
SG B:CYS85 2.5 48.3 1.0
FE2 B:FES302 2.7 50.5 1.0
CB B:CYS73 3.2 59.1 1.0
CB B:CYS85 3.5 51.3 1.0
N B:CYS73 3.8 58.0 1.0
CA B:CYS73 4.1 61.0 1.0
SG B:CYS65 4.2 45.6 1.0
N B:GLY68 4.3 53.1 1.0
N B:CYS85 4.3 54.7 1.0
N B:ARG66 4.4 53.9 1.0
CB B:LEU83 4.5 49.9 1.0
CA B:ARG66 4.5 59.3 1.0
CA B:CYS85 4.5 55.0 1.0
CA B:GLY68 4.5 50.4 1.0
SG B:CYS70 4.7 46.9 1.0
N B:SER72 4.7 53.4 1.0
N B:GLU67 4.8 52.7 1.0
C B:SER72 4.9 55.1 1.0
CD2 B:LEU83 4.9 40.9 1.0

Iron binding site 2 out of 10 in 1zoy

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Iron binding site 2 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


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 Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:50.5
occ:1.00
 FE2 B:FES302 0.0 50.5 1.0
S1 B:FES302 2.0 46.8 1.0
S2 B:FES302 2.0 55.6 1.0
SG B:CYS70 2.2 46.9 1.0
SG B:CYS65 2.3 45.6 1.0
FE1 B:FES302 2.7 52.1 1.0
CB B:CYS65 3.5 44.8 1.0
CB B:CYS70 3.5 49.1 1.0
N B:CYS65 3.5 53.7 1.0
N B:ARG66 3.7 53.9 1.0
N B:CYS70 3.8 49.3 1.0
CA B:CYS65 3.9 50.0 1.0
N B:GLY71 3.9 49.0 1.0
N B:SER72 3.9 53.4 1.0
CA B:CYS70 4.1 49.5 1.0
CB B:SER72 4.1 54.1 1.0
C B:CYS65 4.2 53.6 1.0
OG B:SER72 4.3 56.5 1.0
C B:CYS70 4.3 51.6 1.0
SG B:CYS85 4.5 48.3 1.0
N B:SER64 4.5 56.0 1.0
N B:GLY68 4.5 53.1 1.0
CA B:SER72 4.5 55.2 1.0
C B:SER64 4.5 58.0 1.0
SG B:CYS73 4.6 67.7 1.0
N B:ILE69 4.6 56.2 1.0
CA B:ARG66 4.6 59.3 1.0
N B:GLU67 4.6 52.7 1.0
N B:CYS73 4.7 58.0 1.0
CA B:GLY71 4.8 46.2 1.0
C B:GLY71 4.8 53.0 1.0
CA B:SER64 4.9 54.0 1.0
CA B:GLY68 4.9 50.4 1.0
CB B:SER64 4.9 52.6 1.0

Iron binding site 3 out of 10 in 1zoy

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Iron binding site 3 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


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 Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:54.3
occ:1.00
 FE1 B:SF4303 0.0 54.3 1.0
S2 B:SF4303 2.1 50.5 1.0
SG B:CYS164 2.3 54.9 1.0
S4 B:SF4303 2.4 51.2 1.0
S3 B:SF4303 2.6 50.6 1.0
FE3 B:SF4303 2.8 55.0 1.0
CB B:CYS164 2.8 44.4 1.0
FE4 B:SF4303 2.9 59.3 1.0
FE2 B:SF4303 3.1 54.7 1.0
N B:CYS164 3.7 45.9 1.0
CA B:CYS164 3.8 44.4 1.0
S1 B:SF4303 3.9 51.6 1.0
CB B:ALA182 4.2 35.4 1.0
CA B:ALA182 4.5 36.0 1.0
CG B:PRO231 4.5 49.7 1.0
N B:SER165 4.7 45.1 1.0
N B:CYS163 4.7 48.6 1.0
N B:ALA182 4.8 37.0 1.0
C B:CYS164 4.8 44.7 1.0
SG B:CYS161 4.8 47.6 1.0
C B:CYS163 4.9 45.0 1.0
SG B:CYS158 5.0 43.9 1.0
N B:ALA162 5.0 43.3 1.0

Iron binding site 4 out of 10 in 1zoy

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Iron binding site 4 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


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 Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:54.7
occ:1.00
 FE2 B:SF4303 0.0 54.7 1.0
SG B:CYS158 2.2 43.9 1.0
S3 B:SF4303 2.3 50.6 1.0
S4 B:SF4303 2.3 51.2 1.0
S1 B:SF4303 2.3 51.6 1.0
FE4 B:SF4303 2.8 59.3 1.0
FE3 B:SF4303 2.9 55.0 1.0
FE1 B:SF4303 3.1 54.3 1.0
CB B:CYS158 3.3 42.7 1.0
CA B:CYS158 3.7 45.4 1.0
S2 B:SF4303 3.8 50.5 1.0
N B:ILE159 3.9 46.7 1.0
O B:HOH1203 3.9 40.6 1.0
N B:LEU160 4.0 49.9 1.0
C B:CYS158 4.2 45.4 1.0
CA B:LEU160 4.6 47.3 1.0
CD1 B:LEU229 4.7 53.7 1.0
N B:CYS161 4.9 44.5 1.0
C B:ILE159 5.0 48.7 1.0
SG B:CYS164 5.0 54.9 1.0
CA B:ILE159 5.0 46.4 1.0

Iron binding site 5 out of 10 in 1zoy

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Iron binding site 5 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:55.0
occ:1.00
 FE3 B:SF4303 0.0 55.0 1.0
S4 B:SF4303 2.0 51.2 1.0
S2 B:SF4303 2.3 50.5 1.0
S1 B:SF4303 2.3 51.6 1.0
SG B:CYS225 2.4 53.2 1.0
FE4 B:SF4303 2.7 59.3 1.0
FE1 B:SF4303 2.8 54.3 1.0
FE2 B:SF4303 2.9 54.7 1.0
CB B:CYS225 3.4 56.4 1.0
S3 B:SF4303 3.8 50.6 1.0
CA B:CYS225 4.0 56.9 1.0
CD B:PRO226 4.3 64.7 1.0
CD1 B:LEU229 4.4 53.7 1.0
CB B:LEU229 4.4 53.7 1.0
CG B:LEU229 4.6 58.0 1.0
C B:CYS225 4.7 58.0 1.0
N B:PRO226 4.8 61.7 1.0
CB B:CYS164 4.8 44.4 1.0
SG B:CYS161 4.8 47.6 1.0
SG B:CYS164 4.9 54.9 1.0
CB B:LYS227 5.0 50.1 1.0
N B:LYS227 5.0 52.0 1.0

Iron binding site 6 out of 10 in 1zoy

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Iron binding site 6 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:59.3
occ:1.00
 FE4 B:SF4303 0.0 59.3 1.0
S1 B:SF4303 1.9 51.6 1.0
S2 B:SF4303 2.0 50.5 1.0
S3 B:SF4303 2.0 50.6 1.0
SG B:CYS161 2.4 47.6 1.0
FE3 B:SF4303 2.7 55.0 1.0
FE2 B:SF4303 2.8 54.7 1.0
FE1 B:SF4303 2.9 54.3 1.0
S4 B:SF4303 3.7 51.2 1.0
N B:CYS161 3.8 44.5 1.0
CB B:CYS161 3.9 42.5 1.0
N B:ALA162 4.1 43.3 1.0
CD B:PRO226 4.2 64.7 1.0
CA B:CYS161 4.3 45.0 1.0
N B:CYS163 4.3 48.6 1.0
C B:CYS161 4.6 45.6 1.0
SG B:CYS225 4.6 53.2 1.0
CB B:CYS163 4.6 50.3 1.0
N B:LEU160 4.6 49.9 1.0
N B:CYS164 4.7 45.9 1.0
SG B:CYS158 4.8 43.9 1.0
C B:LEU160 4.8 48.1 1.0
SG B:CYS164 4.9 54.9 1.0
CA B:ALA162 4.9 44.7 1.0
CA B:LEU160 5.0 47.3 1.0
CG B:PRO226 5.0 66.5 1.0

Iron binding site 7 out of 10 in 1zoy

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Iron binding site 7 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:47.4
occ:1.00
 FE1 B:F3S304 0.0 47.4 1.0
S3 B:F3S304 2.1 45.2 1.0
S2 B:F3S304 2.1 48.0 1.0
S1 B:F3S304 2.2 52.1 1.0
FE3 B:F3S304 2.3 53.8 1.0
SG B:CYS215 2.4 46.2 1.0
FE4 B:F3S304 2.9 54.1 1.0
CB B:CYS215 3.4 50.9 1.0
O B:HOH1260 3.7 0.0 1.0
CA B:CYS215 3.8 45.5 1.0
N B:THR217 3.8 48.7 1.0
S4 B:F3S304 3.8 46.6 1.0
OH B:TYR178 4.1 46.0 1.0
CA B:THR217 4.1 49.6 1.0
N B:ILE218 4.2 49.6 1.0
N B:HIS216 4.2 49.6 1.0
O B:HOH1244 4.2 54.3 1.0
C B:CYS215 4.3 47.7 1.0
SG B:CYS168 4.5 43.1 1.0
C B:THR217 4.6 49.2 1.0
N B:MET219 4.8 54.5 1.0
C B:HIS216 4.9 51.8 1.0
SG B:CYS221 5.0 51.4 1.0

Iron binding site 8 out of 10 in 1zoy

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Iron binding site 8 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:53.8
occ:1.00
 FE3 B:F3S304 0.0 53.8 1.0
S1 B:F3S304 1.9 52.1 1.0
S3 B:F3S304 2.0 45.2 1.0
S4 B:F3S304 2.1 46.6 1.0
FE1 B:F3S304 2.3 47.4 1.0
SG B:CYS168 2.5 43.1 1.0
FE4 B:F3S304 2.5 54.1 1.0
S2 B:F3S304 3.1 48.0 1.0
O B:HOH1260 3.5 0.0 1.0
CB B:CYS168 3.6 42.6 1.0
OH B:TYR178 4.2 46.0 1.0
CG B:PRO181 4.5 46.9 1.0
SG B:CYS215 4.5 46.2 1.0
CA B:CYS168 4.5 48.1 1.0
SG B:CYS221 4.6 51.4 1.0
CB B:ILE218 4.7 52.9 1.0
N B:ILE218 4.7 49.6 1.0
N B:MET219 4.9 54.5 1.0
CB B:CYS215 4.9 50.9 1.0
CA B:CYS215 5.0 45.5 1.0

Iron binding site 9 out of 10 in 1zoy

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Iron binding site 9 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe304

b:54.1
occ:1.00
 FE4 B:F3S304 0.0 54.1 1.0
S2 B:F3S304 1.9 48.0 1.0
SG B:CYS221 2.2 51.4 1.0
S4 B:F3S304 2.3 46.6 1.0
S3 B:F3S304 2.4 45.2 1.0
FE3 B:F3S304 2.5 53.8 1.0
FE1 B:F3S304 2.9 47.4 1.0
CB B:CYS221 3.2 44.2 1.0
N B:CYS221 3.9 48.8 1.0
S1 B:F3S304 4.0 52.1 1.0
N B:MET219 4.0 54.5 1.0
CA B:MET219 4.1 50.5 1.0
CA B:CYS221 4.2 47.9 1.0
CG B:PRO181 4.3 46.9 1.0
N B:ASN220 4.4 47.2 1.0
C B:MET219 4.4 50.0 1.0
CA B:GLY232 4.5 43.3 1.0
CB B:PRO181 4.6 45.5 1.0
SG B:CYS168 4.6 43.1 1.0
N B:GLY232 4.6 45.2 1.0
CE B:MET219 4.8 68.4 1.0
N B:THR222 4.9 46.1 1.0
C B:ASN220 5.0 49.6 1.0

Iron binding site 10 out of 10 in 1zoy

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Iron binding site 10 out of 10 in the Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of Mitochondrial Respiratory Complex II From Porcine Heart at 2.4 Angstroms within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe1305

b:55.0
occ:1.00
 FE C:HEM1305 0.0 55.0 1.0
ND C:HEM1305 2.0 54.8 1.0
NC C:HEM1305 2.1 58.6 1.0
NB C:HEM1305 2.1 59.7 1.0
NA C:HEM1305 2.1 62.3 1.0
NE2 D:HIS79 2.2 50.2 1.0
NE2 C:HIS101 2.2 61.0 1.0
CD2 C:HIS101 3.0 62.5 1.0
C1D C:HEM1305 3.0 59.5 1.0
C4C C:HEM1305 3.0 58.9 1.0
C4D C:HEM1305 3.0 60.4 1.0
C4B C:HEM1305 3.1 61.3 1.0
C1C C:HEM1305 3.1 59.2 1.0
CE1 D:HIS79 3.1 51.8 1.0
C1A C:HEM1305 3.1 60.1 1.0
C1B C:HEM1305 3.1 65.3 1.0
C4A C:HEM1305 3.1 63.3 1.0
CD2 D:HIS79 3.2 50.2 1.0
CHD C:HEM1305 3.4 57.5 1.0
CE1 C:HIS101 3.4 64.5 1.0
CHA C:HEM1305 3.4 57.1 1.0
CHC C:HEM1305 3.4 58.0 1.0
CHB C:HEM1305 3.5 65.8 1.0
CG C:HIS101 4.2 64.2 1.0
ND1 D:HIS79 4.2 56.0 1.0
C3D C:HEM1305 4.3 62.4 1.0
C2D C:HEM1305 4.3 58.1 1.0
CG D:HIS79 4.3 57.3 1.0
C3C C:HEM1305 4.3 64.5 1.0
C3B C:HEM1305 4.3 61.2 1.0
C2C C:HEM1305 4.3 65.1 1.0
C2B C:HEM1305 4.3 64.1 1.0
C3A C:HEM1305 4.3 62.9 1.0
C2A C:HEM1305 4.3 64.4 1.0
ND1 C:HIS101 4.4 63.5 1.0
NE2 C:HIS45 4.9 62.4 1.0

Reference:

F.Sun, X.Huo, Y.Zhai, A.Wang, J.Xu, D.Su, M.Bartlam, Z.Rao. Crystal Structure of Mitochondrial Respiratory Membrane Protein Complex II Cell(Cambridge,Mass.) V. 121 1043 2005.
ISSN: ISSN 0092-8674
PubMed: 15989954
DOI: 10.1016/J.CELL.2005.05.025
Page generated: Sat Aug 3 18:42:32 2024

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