Atomistry » Iron » PDB 6m7e-6n1y » 6myu
Atomistry »
  Iron »
    PDB 6m7e-6n1y »
      6myu »

Iron in PDB 6myu: Avian Mitochondrial Complex II Crystallized in the Presence of Hqno

Enzymatic activity of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno

All present enzymatic activity of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno:
1.3.5.1;

Protein crystallography data

The structure of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno, PDB code: 6myu was solved by E.A.Berry, L.-S.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.78 / 1.97
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 70.029, 83.958, 290.540, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 22.3

Other elements in 6myu:

The structure of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno also contains other interesting chemical elements:

Potassium (K) 2 atoms
Manganese (Mn) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno (pdb code 6myu). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno, PDB code: 6myu:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 1 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1001

b:35.6
occ:1.00
 FE1 B:FES1001 0.0 35.6 1.0
S2 B:FES1001 2.2 34.7 1.0
S1 B:FES1001 2.2 35.0 1.0
SG B:CYS85 2.2 35.5 1.0
SG B:CYS73 2.4 37.2 1.0
FE2 B:FES1001 2.8 33.8 1.0
CB B:CYS85 3.3 40.6 1.0
CB B:CYS73 3.5 36.6 1.0
N B:CYS73 4.0 34.2 1.0
N B:CYS85 4.2 41.7 1.0
SG B:CYS65 4.2 37.4 1.0
N B:GLY68 4.3 38.6 1.0
CB B:LEU83 4.3 34.4 1.0
CA B:CYS85 4.3 40.8 1.0
CA B:CYS73 4.3 34.6 1.0
CA B:GLY68 4.4 36.8 1.0
N B:ARG66 4.6 44.8 1.0
CA B:ARG66 4.6 48.5 1.0
CD1 B:LEU83 4.7 30.8 1.0
N B:SER72 4.8 31.1 1.0
SG B:CYS70 4.8 35.5 1.0
CD2 B:LEU45 4.8 36.6 1.0
CG B:LEU83 4.9 31.1 1.0
CD2 B:LEU83 4.9 30.9 1.0

Iron binding site 2 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 2 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1001

b:33.8
occ:1.00
 FE2 B:FES1001 0.0 33.8 1.0
SG B:CYS65 2.2 37.4 1.0
S1 B:FES1001 2.2 35.0 1.0
S2 B:FES1001 2.2 34.7 1.0
SG B:CYS70 2.3 35.5 1.0
FE1 B:FES1001 2.8 35.6 1.0
CB B:CYS65 3.4 38.4 1.0
N B:CYS70 3.5 34.2 1.0
N B:CYS65 3.5 36.6 1.0
CB B:CYS70 3.5 30.6 1.0
N B:GLY71 3.7 30.0 1.0
CA B:CYS70 3.9 30.6 1.0
CA B:CYS65 3.9 36.3 1.0
N B:ARG66 3.9 44.8 1.0
N B:SER72 3.9 31.1 1.0
C B:CYS70 4.1 30.3 1.0
SG B:CYS85 4.2 35.5 1.0
N B:GLY68 4.3 38.6 1.0
C B:CYS65 4.3 40.8 1.0
N B:ILE69 4.3 35.9 1.0
CB B:SER72 4.5 32.1 1.0
CA B:GLY68 4.6 36.8 1.0
C B:SER64 4.6 39.3 1.0
N B:SER64 4.6 37.8 1.0
CA B:GLY71 4.6 29.8 1.0
C B:ILE69 4.7 32.6 1.0
N B:GLU67 4.7 45.8 1.0
CA B:ARG66 4.7 48.5 1.0
C B:GLY71 4.7 33.2 1.0
CA B:SER72 4.8 31.5 1.0
C B:GLY68 4.8 37.0 1.0
OG B:SER72 4.8 39.1 1.0
N B:CYS73 4.8 34.2 1.0
SG B:CYS73 4.9 37.2 1.0

Iron binding site 3 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 3 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1002

b:33.2
occ:1.00
 FE1 B:SF41002 0.0 33.2 1.0
S3 B:SF41002 2.2 33.1 1.0
SG B:CYS164 2.2 32.5 1.0
S4 B:SF41002 2.3 33.7 1.0
S2 B:SF41002 2.3 27.4 1.0
FE2 B:SF41002 2.6 33.0 1.0
FE3 B:SF41002 2.7 34.7 1.0
FE4 B:SF41002 2.8 34.8 1.0
CB B:CYS164 3.2 31.4 1.0
S1 B:SF41002 3.8 32.8 1.0
N B:CYS164 3.8 31.4 1.0
CB B:ALA182 4.0 26.9 1.0
CA B:CYS164 4.1 33.8 1.0
CA B:ALA182 4.4 26.6 1.0
SG B:CYS161 4.6 34.4 1.0
SG B:CYS158 4.7 32.7 1.0
SG B:CYS225 4.7 35.1 1.0
N B:ALA182 4.8 26.8 1.0
N B:CYS163 4.8 28.9 1.0
N B:ALA162 4.9 30.4 1.0
N B:SER165 5.0 31.4 1.0

Iron binding site 4 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 4 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1002

b:33.0
occ:1.00
 FE2 B:SF41002 0.0 33.0 1.0
S3 B:SF41002 2.2 33.1 1.0
S4 B:SF41002 2.2 33.7 1.0
SG B:CYS225 2.3 35.1 1.0
S1 B:SF41002 2.3 32.8 1.0
FE1 B:SF41002 2.6 33.2 1.0
FE3 B:SF41002 2.8 34.7 1.0
FE4 B:SF41002 2.8 34.8 1.0
CB B:CYS225 3.3 35.0 1.0
S2 B:SF41002 3.9 27.4 1.0
CA B:CYS225 3.9 35.0 1.0
CD B:PRO226 4.2 39.7 1.0
CD1 B:LEU229 4.5 29.8 1.0
C B:CYS225 4.6 36.3 1.0
CB B:LEU229 4.6 34.6 1.0
SG B:CYS164 4.6 32.5 1.0
CG B:LEU229 4.7 31.2 1.0
N B:PRO226 4.7 39.9 1.0
SG B:CYS161 4.7 34.4 1.0
CB B:LYS227 4.7 37.8 1.0
CB B:CYS164 4.8 31.4 1.0
N B:LYS227 4.8 38.1 1.0
CG B:PRO226 5.0 40.2 1.0

Iron binding site 5 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 5 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1002

b:34.7
occ:1.00
 FE3 B:SF41002 0.0 34.7 1.0
S1 B:SF41002 2.2 32.8 1.0
S2 B:SF41002 2.3 27.4 1.0
S4 B:SF41002 2.4 33.7 1.0
SG B:CYS158 2.4 32.7 1.0
FE4 B:SF41002 2.7 34.8 1.0
FE1 B:SF41002 2.7 33.2 1.0
FE2 B:SF41002 2.8 33.0 1.0
CB B:CYS158 3.3 31.1 1.0
CA B:CYS158 3.7 32.7 1.0
S3 B:SF41002 3.8 33.1 1.0
N B:ILE159 3.9 36.8 1.0
N B:LEU160 4.0 35.4 1.0
O B:HOH1141 4.2 30.5 1.0
C B:CYS158 4.2 36.2 1.0
CA B:LEU160 4.6 36.1 1.0
CD1 B:LEU229 4.6 29.8 1.0
SG B:CYS164 4.7 32.5 1.0
N B:CYS161 4.8 32.5 1.0
CB B:ALA182 4.8 26.9 1.0
SG B:CYS161 4.8 34.4 1.0
CE B:MET185 4.8 33.8 1.0
SG B:CYS225 4.9 35.1 1.0
C B:ILE159 4.9 34.6 1.0
CA B:ILE159 5.0 33.4 1.0

Iron binding site 6 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 6 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1002

b:34.8
occ:1.00
 FE4 B:SF41002 0.0 34.8 1.0
S2 B:SF41002 2.2 27.4 1.0
SG B:CYS161 2.2 34.4 1.0
S1 B:SF41002 2.3 32.8 1.0
S3 B:SF41002 2.3 33.1 1.0
FE3 B:SF41002 2.7 34.7 1.0
FE1 B:SF41002 2.8 33.2 1.0
FE2 B:SF41002 2.8 33.0 1.0
N B:CYS161 3.6 32.5 1.0
CB B:CYS161 3.6 34.3 1.0
S4 B:SF41002 3.9 33.7 1.0
N B:ALA162 4.0 30.4 1.0
CA B:CYS161 4.0 34.4 1.0
N B:CYS163 4.3 28.9 1.0
CD B:PRO226 4.3 39.7 1.0
CG1 B:ILE159 4.3 32.6 1.0
C B:CYS161 4.4 33.2 1.0
N B:LEU160 4.5 35.4 1.0
CG B:PRO226 4.5 40.2 1.0
CB B:CYS163 4.6 34.3 1.0
C B:LEU160 4.6 35.9 1.0
SG B:CYS158 4.7 32.7 1.0
SG B:CYS225 4.7 35.1 1.0
SG B:CYS164 4.7 32.5 1.0
N B:CYS164 4.8 31.4 1.0
CA B:LEU160 4.8 36.1 1.0
N B:ILE159 4.8 36.8 1.0
CA B:ALA162 4.9 31.7 1.0
CA B:CYS163 5.0 31.5 1.0

Iron binding site 7 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 7 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1003

b:36.9
occ:1.00
 FE1 B:F3S1003 0.0 36.9 1.0
S1 B:F3S1003 2.2 33.1 1.0
SG B:CYS168 2.3 34.9 1.0
S3 B:F3S1003 2.3 31.9 1.0
S2 B:F3S1003 2.3 34.5 1.0
FE3 B:F3S1003 2.7 35.9 1.0
FE4 B:F3S1003 2.7 34.0 1.0
CB B:CYS168 3.1 37.5 1.0
S4 B:F3S1003 3.9 34.8 1.0
CA B:CYS168 4.0 38.5 1.0
OH B:TYR178 4.2 32.0 1.0
CB B:ILE218 4.6 31.5 1.0
CD1 B:ILE218 4.7 29.1 1.0
C B:CYS168 4.7 34.8 1.0
SG B:CYS221 4.8 33.9 1.0
CE2 B:TYR178 4.8 30.4 1.0
SG B:CYS215 4.8 30.2 1.0
CB B:SER170 4.9 37.8 1.0
N B:ILE218 4.9 32.5 1.0
CD B:PRO169 5.0 32.6 1.0
CZ B:TYR178 5.0 32.4 1.0
N B:PRO169 5.0 32.8 1.0
CD B:PRO181 5.0 29.9 1.0
N B:MET219 5.0 33.6 1.0

Iron binding site 8 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 8 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1003

b:35.9
occ:1.00
 FE3 B:F3S1003 0.0 35.9 1.0
S1 B:F3S1003 2.2 33.1 1.0
S4 B:F3S1003 2.3 34.8 1.0
SG B:CYS221 2.3 33.9 1.0
S3 B:F3S1003 2.3 31.9 1.0
FE1 B:F3S1003 2.7 36.9 1.0
FE4 B:F3S1003 2.7 34.0 1.0
CB B:CYS221 3.4 31.1 1.0
N B:MET219 3.9 33.6 1.0
S2 B:F3S1003 3.9 34.5 1.0
N B:CYS221 3.9 31.6 1.0
CA B:MET219 4.1 34.1 1.0
CA B:CYS221 4.3 31.6 1.0
N B:ASN220 4.4 31.9 1.0
C B:MET219 4.6 33.3 1.0
CB B:PRO181 4.7 28.6 1.0
SG B:CYS168 4.7 34.9 1.0
CB B:CYS168 4.8 37.5 1.0
CA B:GLY232 4.8 34.4 1.0
CG B:PRO181 4.8 29.1 1.0
SG B:CYS215 4.8 30.2 1.0
N B:ILE218 4.9 32.5 1.0

Iron binding site 9 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 9 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1003

b:34.0
occ:1.00
 FE4 B:F3S1003 0.0 34.0 1.0
S4 B:F3S1003 2.3 34.8 1.0
S2 B:F3S1003 2.3 34.5 1.0
SG B:CYS215 2.3 30.2 1.0
S3 B:F3S1003 2.3 31.9 1.0
FE1 B:F3S1003 2.7 36.9 1.0
FE3 B:F3S1003 2.7 35.9 1.0
CB B:CYS215 3.4 30.9 1.0
N B:THR217 3.8 34.5 1.0
CA B:CYS215 3.8 32.2 1.0
OH B:TYR178 3.9 32.0 1.0
S1 B:F3S1003 3.9 33.1 1.0
CA B:THR217 4.1 32.3 1.0
N B:HIS216 4.2 36.0 1.0
O B:HOH1186 4.2 33.5 1.0
N B:ILE218 4.2 32.5 1.0
C B:CYS215 4.3 34.9 1.0
CD1 B:ILE235 4.4 35.9 1.0
C B:THR217 4.6 33.4 1.0
SG B:CYS168 4.7 34.9 1.0
C B:HIS216 4.8 38.1 1.0
SG B:CYS221 4.8 33.9 1.0
N B:MET219 4.9 33.6 1.0

Iron binding site 10 out of 10 in 6myu

Go back to Iron Binding Sites List in 6myu
Iron binding site 10 out of 10 in the Avian Mitochondrial Complex II Crystallized in the Presence of Hqno


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Avian Mitochondrial Complex II Crystallized in the Presence of Hqno within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:36.4
occ:1.00
 FE C:HEM201 0.0 36.4 1.0
NE2 D:HIS46 2.0 38.5 1.0
NE2 C:HIS98 2.0 35.9 1.0
NA C:HEM201 2.0 39.1 1.0
NC C:HEM201 2.0 40.7 1.0
ND C:HEM201 2.1 37.4 1.0
NB C:HEM201 2.1 40.1 1.0
CE1 D:HIS46 2.9 38.9 1.0
CD2 C:HIS98 2.9 37.1 1.0
C1A C:HEM201 3.0 41.9 1.0
CE1 C:HIS98 3.0 36.5 1.0
C1C C:HEM201 3.0 41.8 1.0
C4C C:HEM201 3.1 41.7 1.0
C4A C:HEM201 3.1 39.1 1.0
C4B C:HEM201 3.1 38.9 1.0
CD2 D:HIS46 3.1 40.3 1.0
C1D C:HEM201 3.1 36.3 1.0
C4D C:HEM201 3.1 40.9 1.0
C1B C:HEM201 3.1 38.9 1.0
CHC C:HEM201 3.4 41.8 1.0
CHA C:HEM201 3.4 40.8 1.0
CHD C:HEM201 3.4 37.4 1.0
CHB C:HEM201 3.5 38.5 1.0
ND1 D:HIS46 4.0 39.3 1.0
CG C:HIS98 4.1 36.4 1.0
ND1 C:HIS98 4.1 36.9 1.0
CG D:HIS46 4.2 39.3 1.0
C2A C:HEM201 4.2 40.3 1.0
C3A C:HEM201 4.3 39.0 1.0
C2C C:HEM201 4.3 42.8 1.0
C3C C:HEM201 4.3 42.9 1.0
C2D C:HEM201 4.3 39.5 1.0
C3B C:HEM201 4.3 38.8 1.0
C3D C:HEM201 4.3 43.4 1.0
C2B C:HEM201 4.4 41.1 1.0
NE2 C:HIS42 4.9 37.2 1.0

Reference:

L.-S.Huang, E.A.Berry. Crystallographic Studies of the Binding of Ligands to the Ubiquinone Site of Mitochondrial Respiratory Complex II To Be Published.
Page generated: Wed Aug 7 02:32:14 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy