Atomistry » Iron » PDB 8abg-8aq0 » 8abj
Atomistry »
  Iron »
    PDB 8abg-8aq0 »
      8abj »

Iron in PDB 8abj: Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position

Enzymatic activity of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position

All present enzymatic activity of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position:
7.1.1.8;

Iron Binding Sites:

The binding sites of Iron atom in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position (pdb code 8abj). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position, PDB code: 8abj:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 1 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe501

b:43.0
occ:1.00
 FE C:HEM501 0.0 43.0 1.0
ND C:HEM501 1.9 51.0 1.0
NA C:HEM501 2.0 52.6 1.0
NC C:HEM501 2.0 45.3 1.0
NE2 C:HIS183 2.0 45.1 1.0
NE2 C:HIS82 2.0 46.6 1.0
NB C:HEM501 2.1 48.2 1.0
C4D C:HEM501 2.9 50.4 1.0
C1D C:HEM501 2.9 54.4 1.0
C1A C:HEM501 3.0 55.4 1.0
CE1 C:HIS183 3.0 49.0 1.0
C4A C:HEM501 3.0 58.6 1.0
C4B C:HEM501 3.0 54.1 1.0
CE1 C:HIS82 3.0 48.9 1.0
C1C C:HEM501 3.0 51.4 1.0
C4C C:HEM501 3.0 45.3 1.0
C1B C:HEM501 3.0 56.6 1.0
CD2 C:HIS82 3.1 49.6 1.0
CD2 C:HIS183 3.1 48.1 1.0
CHA C:HEM501 3.4 51.1 1.0
CHD C:HEM501 3.4 47.9 1.0
CHC C:HEM501 3.4 55.3 1.0
CHB C:HEM501 3.5 61.2 1.0
ND1 C:HIS183 4.1 50.0 1.0
ND1 C:HIS82 4.1 45.4 1.0
C3A C:HEM501 4.1 61.3 1.0
C3D C:HEM501 4.1 51.2 1.0
C2A C:HEM501 4.2 60.5 1.0
C2D C:HEM501 4.2 56.2 1.0
C2C C:HEM501 4.2 57.5 1.0
CG C:HIS82 4.2 46.7 1.0
CG C:HIS183 4.2 47.2 1.0
C3C C:HEM501 4.2 56.3 1.0
C3B C:HEM501 4.2 63.7 1.0
C2B C:HEM501 4.3 65.0 1.0
CA C:GLY131 4.8 60.8 1.0
NE2 C:GLN43 4.9 74.2 1.0

Iron binding site 2 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 2 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe502

b:39.6
occ:1.00
 FE C:HEM502 0.0 39.6 1.0
ND C:HEM502 1.9 46.0 1.0
NA C:HEM502 2.0 44.7 1.0
NC C:HEM502 2.0 46.4 1.0
NB C:HEM502 2.1 48.5 1.0
NE2 C:HIS96 2.2 49.1 1.0
NE2 C:HIS197 2.2 34.0 1.0
C4D C:HEM502 2.9 48.2 1.0
C1D C:HEM502 2.9 47.7 1.0
C4C C:HEM502 2.9 47.5 1.0
C1A C:HEM502 2.9 46.0 1.0
C4A C:HEM502 3.0 47.9 1.0
C4B C:HEM502 3.0 52.1 1.0
C1B C:HEM502 3.0 52.2 1.0
C1C C:HEM502 3.1 43.4 1.0
CD2 C:HIS96 3.1 45.5 1.0
CE1 C:HIS197 3.1 34.3 1.0
CE1 C:HIS96 3.2 74.9 1.0
CD2 C:HIS197 3.3 38.5 1.0
CHA C:HEM502 3.4 48.1 1.0
CHB C:HEM502 3.4 52.1 1.0
CHD C:HEM502 3.4 44.1 1.0
CHC C:HEM502 3.5 47.6 1.0
C3C C:HEM502 4.1 45.0 1.0
C2A C:HEM502 4.1 45.7 1.0
C3A C:HEM502 4.2 48.1 1.0
C3D C:HEM502 4.2 51.7 1.0
C2C C:HEM502 4.2 40.1 1.0
C2D C:HEM502 4.2 49.7 1.0
CG C:HIS96 4.2 54.3 1.0
ND1 C:HIS96 4.2 69.0 1.0
ND1 C:HIS197 4.2 38.5 1.0
C3B C:HEM502 4.3 52.9 1.0
C2B C:HEM502 4.3 53.7 1.0
CG C:HIS197 4.4 39.4 1.0

Iron binding site 3 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 3 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe301

b:230.1
occ:1.00
 FE1 P:FES301 0.0 230.1 1.0
SG P:CYS168 2.2 215.6 1.0
S2 P:FES301 2.2 267.7 1.0
S1 P:FES301 2.2 197.4 1.0
SG P:CYS187 2.2 234.1 1.0
CB P:CYS168 2.8 169.8 1.0
FE2 P:FES301 3.0 250.1 1.0
CB P:CYS187 3.2 220.8 1.0
OG P:SER192 3.7 231.8 1.0
CB P:HIS170 3.8 232.4 1.0
CA P:CYS168 4.2 159.9 1.0
CB P:CYS173 4.3 178.9 1.0
ND1 P:HIS170 4.5 254.1 1.0
N P:LEU171 4.5 200.2 1.0
ND1 P:HIS190 4.5 203.2 1.0
N P:HIS170 4.6 206.9 1.0
C P:CYS168 4.6 159.3 1.0
CA P:CYS187 4.6 220.4 1.0
CB P:CYS189 4.7 223.1 1.0
N P:CYS173 4.7 157.1 1.0
CG P:HIS170 4.7 234.8 1.0
CA P:HIS170 4.7 218.9 1.0
SG P:CYS173 4.8 213.5 1.0
O P:CYS168 4.9 158.7 1.0
CB P:SER192 4.9 222.2 1.0
N P:GLY172 4.9 209.2 1.0
O P:CYS173 4.9 143.6 1.0
CA P:CYS173 5.0 160.9 1.0

Iron binding site 4 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 4 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe301

b:250.1
occ:1.00
 FE2 P:FES301 0.0 250.1 1.0
ND1 P:HIS170 2.0 254.1 1.0
ND1 P:HIS190 2.1 203.2 1.0
S2 P:FES301 2.2 267.7 1.0
S1 P:FES301 2.2 197.4 1.0
CG P:HIS190 2.8 199.6 1.0
CG P:HIS170 2.9 234.8 1.0
CB P:HIS190 3.0 188.1 1.0
FE1 P:FES301 3.0 230.1 1.0
CE1 P:HIS170 3.0 266.0 1.0
CE1 P:HIS190 3.2 186.7 1.0
CB P:HIS170 3.2 232.4 1.0
N P:HIS190 3.8 179.1 1.0
CD2 P:HIS190 3.9 200.2 1.0
CA P:HIS190 4.0 169.5 1.0
NE2 P:HIS190 4.1 183.8 1.0
CD2 P:HIS170 4.1 222.4 1.0
NE2 P:HIS170 4.1 222.8 1.0
N P:LEU171 4.3 200.2 1.0
SG P:CYS187 4.3 234.1 1.0
CB P:CYS189 4.3 223.1 1.0
CG P:LEU171 4.6 216.9 1.0
CA P:HIS170 4.6 218.9 1.0
C P:CYS189 4.6 194.5 1.0
SG P:CYS168 4.6 215.6 1.0
CB P:LEU171 4.6 201.4 1.0
CG P:PRO204 4.6 160.8 1.0
C P:HIS190 4.7 162.6 1.0
C P:HIS170 4.8 203.9 1.0
CB P:PRO204 4.8 170.9 1.0
CD1 P:LEU171 4.9 180.8 1.0
OG P:SER192 5.0 231.8 1.0

Iron binding site 5 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 5 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe401

b:66.7
occ:1.00
 FE D:HEC401 0.0 66.7 1.0
NE2 D:HIS128 2.0 82.2 1.0
NB D:HEC401 2.0 80.8 1.0
NA D:HEC401 2.0 68.4 1.0
ND D:HEC401 2.0 69.3 1.0
NC D:HEC401 2.1 73.4 1.0
SD D:MET248 2.3 73.6 1.0
CE1 D:HIS128 2.9 82.2 1.0
C4B D:HEC401 3.0 81.2 1.0
C4C D:HEC401 3.0 67.9 1.0
C4D D:HEC401 3.0 73.0 1.0
C1D D:HEC401 3.0 70.8 1.0
CD2 D:HIS128 3.0 84.2 1.0
C1A D:HEC401 3.0 69.7 1.0
C4A D:HEC401 3.0 72.5 1.0
C1B D:HEC401 3.0 84.8 1.0
C1C D:HEC401 3.1 77.2 1.0
CE D:MET248 3.3 79.9 1.0
CHA D:HEC401 3.4 75.9 1.0
CHD D:HEC401 3.4 69.5 1.0
CHB D:HEC401 3.4 79.2 1.0
CHC D:HEC401 3.4 72.9 1.0
CG D:MET248 3.5 78.2 1.0
CB D:MET248 4.0 80.7 1.0
ND1 D:HIS128 4.1 76.3 1.0
CG D:HIS128 4.1 77.7 1.0
C3B D:HEC401 4.3 76.1 1.0
C3C D:HEC401 4.3 80.0 1.0
C3D D:HEC401 4.3 75.7 1.0
C3A D:HEC401 4.3 73.5 1.0
C2D D:HEC401 4.3 76.2 1.0
C2A D:HEC401 4.3 70.6 1.0
C2B D:HEC401 4.3 83.2 1.0
C2C D:HEC401 4.4 83.4 1.0

Iron binding site 6 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 6 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe501

b:47.9
occ:1.00
 FE N:HEM501 0.0 47.9 1.0
ND N:HEM501 1.9 54.9 1.0
NA N:HEM501 2.0 48.2 1.0
NC N:HEM501 2.0 46.7 1.0
NE2 N:HIS82 2.0 51.4 1.0
NE2 N:HIS183 2.1 41.6 1.0
NB N:HEM501 2.1 52.4 1.0
C4D N:HEM501 2.9 56.3 1.0
C1D N:HEM501 2.9 55.5 1.0
C1A N:HEM501 3.0 50.8 1.0
CE1 N:HIS82 3.0 54.4 1.0
C4A N:HEM501 3.0 49.1 1.0
C1C N:HEM501 3.0 49.5 1.0
C4C N:HEM501 3.0 49.0 1.0
CE1 N:HIS183 3.0 46.5 1.0
C4B N:HEM501 3.0 55.6 1.0
CD2 N:HIS82 3.1 51.7 1.0
C1B N:HEM501 3.1 55.0 1.0
CD2 N:HIS183 3.1 45.2 1.0
CHA N:HEM501 3.4 52.8 1.0
CHD N:HEM501 3.4 51.3 1.0
CHC N:HEM501 3.4 52.4 1.0
CHB N:HEM501 3.5 52.5 1.0
ND1 N:HIS82 4.1 55.1 1.0
C3D N:HEM501 4.1 55.1 1.0
ND1 N:HIS183 4.1 50.8 1.0
C2A N:HEM501 4.1 56.5 1.0
C3A N:HEM501 4.2 52.2 1.0
C2D N:HEM501 4.2 56.1 1.0
CG N:HIS82 4.2 53.9 1.0
CG N:HIS183 4.2 51.5 1.0
C2C N:HEM501 4.2 53.9 1.0
C3C N:HEM501 4.2 57.0 1.0
C3B N:HEM501 4.3 63.9 1.0
C2B N:HEM501 4.3 56.2 1.0
CA N:GLY131 4.8 57.1 1.0
NE2 N:GLN43 4.9 68.8 1.0

Iron binding site 7 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 7 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe502

b:38.5
occ:1.00
 FE N:HEM502 0.0 38.5 1.0
ND N:HEM502 1.9 47.8 1.0
NA N:HEM502 2.0 49.5 1.0
NE2 N:HIS96 2.0 55.7 1.0
NC N:HEM502 2.0 42.7 1.0
NB N:HEM502 2.1 44.5 1.0
NE2 N:HIS197 2.2 40.7 1.0
CE1 N:HIS96 2.9 64.5 1.0
C1D N:HEM502 2.9 48.8 1.0
C4C N:HEM502 2.9 45.4 1.0
C4D N:HEM502 2.9 52.1 1.0
C1A N:HEM502 2.9 52.9 1.0
C4A N:HEM502 3.0 51.2 1.0
C1C N:HEM502 3.0 46.1 1.0
C4B N:HEM502 3.0 46.4 1.0
C1B N:HEM502 3.0 45.3 1.0
CE1 N:HIS197 3.1 45.5 1.0
CD2 N:HIS96 3.1 60.6 1.0
CD2 N:HIS197 3.3 45.1 1.0
CHA N:HEM502 3.4 49.9 1.0
CHD N:HEM502 3.4 43.8 1.0
CHB N:HEM502 3.4 47.2 1.0
CHC N:HEM502 3.5 47.3 1.0
ND1 N:HIS96 4.0 64.8 1.0
C3C N:HEM502 4.1 50.8 1.0
C2A N:HEM502 4.1 55.3 1.0
C2C N:HEM502 4.1 48.3 1.0
CG N:HIS96 4.1 61.0 1.0
C3D N:HEM502 4.1 54.3 1.0
C3A N:HEM502 4.2 53.4 1.0
C2D N:HEM502 4.2 51.8 1.0
ND1 N:HIS197 4.2 50.0 1.0
C2B N:HEM502 4.3 45.5 1.0
C3B N:HEM502 4.3 45.5 1.0
CG N:HIS197 4.3 51.2 1.0

Iron binding site 8 out of 8 in 8abj

Go back to Iron Binding Sites List in 8abj
Iron binding site 8 out of 8 in the Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Complex III2 From Yarrowia Lipolytica, Antimycin A Bound, C-Position within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Fe401

b:70.3
occ:1.00
 FE O:HEC401 0.0 70.3 1.0
NE2 O:HIS128 2.0 83.5 1.0
NB O:HEC401 2.0 71.0 1.0
NA O:HEC401 2.1 65.4 1.0
NC O:HEC401 2.1 79.9 1.0
ND O:HEC401 2.1 74.1 1.0
SD O:MET248 2.3 80.1 1.0
CE1 O:HIS128 2.9 86.4 1.0
C4B O:HEC401 3.0 74.5 1.0
CD2 O:HIS128 3.0 84.0 1.0
C1B O:HEC401 3.0 75.2 1.0
C4D O:HEC401 3.0 73.8 1.0
C4A O:HEC401 3.0 65.2 1.0
C4C O:HEC401 3.0 83.8 1.0
C1C O:HEC401 3.0 82.3 1.0
C1A O:HEC401 3.1 64.8 1.0
C1D O:HEC401 3.1 78.0 1.0
CE O:MET248 3.3 86.5 1.0
CHA O:HEC401 3.4 70.9 1.0
CHC O:HEC401 3.4 73.8 1.0
CHB O:HEC401 3.4 69.2 1.0
CHD O:HEC401 3.4 76.6 1.0
CG O:MET248 3.5 84.5 1.0
ND1 O:HIS128 4.1 77.6 1.0
CB O:MET248 4.1 70.3 1.0
CG O:HIS128 4.1 75.7 1.0
C3B O:HEC401 4.2 77.3 1.0
C3C O:HEC401 4.3 99.8 1.0
C3D O:HEC401 4.3 85.7 1.0
C2B O:HEC401 4.3 77.8 1.0
C3A O:HEC401 4.3 67.1 1.0
C2C O:HEC401 4.3 102.2 1.0
C2A O:HEC401 4.4 60.7 1.0
C2D O:HEC401 4.4 86.7 1.0

Reference:

J.P.Wieferig, W.Kuhlbrandt. Analysis of the Conformational Heterogeneity of the Rieske Iron-Sulfur Protein in Complex III2 By Cryo-Em Iucrj 2023.
ISSN: ESSN 2052-2525
Page generated: Fri Aug 9 17:11:09 2024

Last articles

Cl in 3HSD
Cl in 3HT8
Cl in 3HQ2
Cl in 3HT0
Cl in 3HSZ
Cl in 3HSG
Cl in 3HRL
Cl in 3HRF
Cl in 3HRK
Cl in 3HRA
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy