Iron in PDB 8abm: Complex III2 From Yarrowia Lipolytica, Apo, B-Position

All present enzymatic activity of Complex III2 From Yarrowia Lipolytica, Apo, B-Position:
7.1.1.8;

The binding sites of Iron atom in the Complex III2 From Yarrowia Lipolytica, Apo, B-Position (pdb code 8abm). 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, Apo, B-Position, PDB code: 8abm:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe501 b:31.3 occ:1.00 FE C:HEM501 0.0 31.3 1.0 ND C:HEM501 1.9 31.0 1.0 NA C:HEM501 2.0 31.4 1.0 NE2 C:HIS183 2.0 33.4 1.0 NC C:HEM501 2.0 31.8 1.0 NE2 C:HIS82 2.1 28.9 1.0 NB C:HEM501 2.1 31.0 1.0 C4D C:HEM501 2.9 30.5 1.0 C1D C:HEM501 2.9 31.6 1.0 C1A C:HEM501 3.0 32.2 1.0 CE1 C:HIS183 3.0 33.0 1.0 C4A C:HEM501 3.0 32.7 1.0 C4B C:HEM501 3.0 33.8 1.0 CE1 C:HIS82 3.0 27.3 1.0 C4C C:HEM501 3.0 31.6 1.0 C1C C:HEM501 3.0 33.9 1.0 C1B C:HEM501 3.1 32.0 1.0 CD2 C:HIS183 3.1 31.8 1.0 CD2 C:HIS82 3.1 29.0 1.0 CHA C:HEM501 3.4 30.7 1.0 CHD C:HEM501 3.4 29.7 1.0 CHC C:HEM501 3.4 34.5 1.0 CHB C:HEM501 3.5 32.4 1.0 ND1 C:HIS183 4.1 33.0 1.0 C3D C:HEM501 4.1 32.8 1.0 ND1 C:HIS82 4.1 29.6 1.0 C3A C:HEM501 4.1 32.7 1.0 C2A C:HEM501 4.1 34.8 1.0 C2D C:HEM501 4.2 33.1 1.0 CG C:HIS183 4.2 32.2 1.0 CG C:HIS82 4.2 31.2 1.0 C2C C:HEM501 4.2 34.2 1.0 C3C C:HEM501 4.3 35.8 1.0 C3B C:HEM501 4.3 33.8 1.0 C2B C:HEM501 4.3 33.0 1.0 CA C:GLY131 4.8 42.0 1.0 NE2 C:GLN43 4.9 45.5 1.0

Iron binding site 2 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe502 b:31.3 occ:1.00 FE C:HEM502 0.0 31.3 1.0 ND C:HEM502 1.9 33.7 1.0 NA C:HEM502 2.0 32.6 1.0 NC C:HEM502 2.0 31.0 1.0 NB C:HEM502 2.1 32.0 1.0 NE2 C:HIS197 2.2 31.8 1.0 NE2 C:HIS96 2.2 33.3 1.0 C4D C:HEM502 2.9 33.3 1.0 C4C C:HEM502 2.9 32.2 1.0 C1D C:HEM502 2.9 31.8 1.0 C1A C:HEM502 3.0 33.8 1.0 C4A C:HEM502 3.0 34.5 1.0 C4B C:HEM502 3.0 32.3 1.0 CE1 C:HIS197 3.0 31.7 1.0 C1B C:HEM502 3.0 32.4 1.0 C1C C:HEM502 3.1 32.8 1.0 CD2 C:HIS96 3.1 32.2 1.0 CE1 C:HIS96 3.2 35.1 1.0 CD2 C:HIS197 3.2 33.7 1.0 CHD C:HEM502 3.4 32.0 1.0 CHA C:HEM502 3.4 33.4 1.0 CHB C:HEM502 3.4 33.7 1.0 CHC C:HEM502 3.5 31.5 1.0 C3C C:HEM502 4.1 34.8 1.0 C2A C:HEM502 4.1 35.0 1.0 C3A C:HEM502 4.2 33.4 1.0 C3D C:HEM502 4.2 34.5 1.0 C2D C:HEM502 4.2 32.8 1.0 C2C C:HEM502 4.2 33.6 1.0 ND1 C:HIS197 4.2 33.5 1.0 C2B C:HEM502 4.3 32.4 1.0 C3B C:HEM502 4.3 32.6 1.0 CG C:HIS96 4.3 32.9 1.0 ND1 C:HIS96 4.3 35.5 1.0 CG C:HIS197 4.3 34.9 1.0

Iron binding site 3 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ P:Fe301 b:114.9 occ:1.00 FE1 P:FES301 0.0 114.9 1.0 S2 P:FES301 2.2 103.2 1.0 SG P:CYS187 2.2 114.1 1.0 SG P:CYS168 2.2 105.6 1.0 S1 P:FES301 2.2 120.1 1.0 CB P:CYS168 2.9 103.8 1.0 FE2 P:FES301 3.0 127.5 1.0 CB P:CYS187 3.2 113.8 1.0 OG P:SER192 3.7 151.8 1.0 CB P:HIS170 3.8 117.0 1.0 CB P:CYS173 4.2 118.0 1.0 CA P:CYS168 4.3 100.1 1.0 ND1 P:HIS170 4.5 119.1 1.0 ND1 P:HIS190 4.5 139.0 1.0 N P:LEU171 4.6 109.8 1.0 N P:HIS170 4.6 116.5 1.0 C P:CYS168 4.6 102.5 1.0 CA P:CYS187 4.6 122.0 1.0 CB P:CYS189 4.6 138.4 1.0 CG P:HIS170 4.6 116.8 1.0 CA P:HIS170 4.7 118.7 1.0 SG P:CYS173 4.7 145.7 1.0 N P:CYS173 4.7 96.7 1.0 O P:CYS168 4.9 103.0 1.0 O P:CYS173 4.9 101.8 1.0 CB P:SER192 4.9 140.8 1.0 CA P:CYS173 5.0 102.1 1.0 N P:HIS190 5.0 133.6 1.0

Iron binding site 4 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ P:Fe301 b:127.5 occ:1.00 FE2 P:FES301 0.0 127.5 1.0 ND1 P:HIS170 2.0 119.1 1.0 ND1 P:HIS190 2.1 139.0 1.0 S2 P:FES301 2.2 103.2 1.0 S1 P:FES301 2.2 120.1 1.0 CG P:HIS190 2.8 134.0 1.0 CG P:HIS170 2.9 116.8 1.0 FE1 P:FES301 3.0 114.9 1.0 CB P:HIS190 3.0 130.6 1.0 CE1 P:HIS170 3.0 121.9 1.0 CE1 P:HIS190 3.1 135.4 1.0 CB P:HIS170 3.2 117.0 1.0 N P:HIS190 3.9 133.6 1.0 CD2 P:HIS190 3.9 137.7 1.0 CA P:HIS190 4.0 132.2 1.0 NE2 P:HIS190 4.1 134.7 1.0 CD2 P:HIS170 4.1 125.1 1.0 NE2 P:HIS170 4.1 129.9 1.0 SG P:CYS187 4.2 114.1 1.0 N P:LEU171 4.3 109.8 1.0 CB P:CYS189 4.3 138.4 1.0 CA P:HIS170 4.5 118.7 1.0 CG P:PRO204 4.6 132.1 1.0 SG P:CYS168 4.6 105.6 1.0 CG P:LEU171 4.6 122.2 1.0 C P:CYS189 4.6 136.1 1.0 CB P:LEU171 4.7 115.2 1.0 CB P:PRO204 4.7 130.5 1.0 C P:HIS170 4.8 116.6 1.0 C P:HIS190 4.8 134.7 1.0 CD1 P:LEU171 4.9 127.3 1.0 OG P:SER192 5.0 151.8 1.0

Iron binding site 5 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe401 b:46.9 occ:1.00 FE D:HEC401 0.0 46.9 1.0 NE2 D:HIS128 2.0 51.2 1.0 NB D:HEC401 2.0 49.6 1.0 NC D:HEC401 2.0 50.6 1.0 ND D:HEC401 2.1 50.5 1.0 NA D:HEC401 2.1 47.4 1.0 SD D:MET248 2.2 58.2 1.0 CE1 D:HIS128 3.0 50.4 1.0 C4C D:HEC401 3.0 53.4 1.0 C4B D:HEC401 3.0 50.5 1.0 C1A D:HEC401 3.0 50.3 1.0 C4D D:HEC401 3.0 52.6 1.0 C1B D:HEC401 3.0 50.3 1.0 C1D D:HEC401 3.0 52.1 1.0 C4A D:HEC401 3.0 46.9 1.0 CD2 D:HIS128 3.1 50.1 1.0 C1C D:HEC401 3.1 51.3 1.0 CE D:MET248 3.3 60.4 1.0 CHA D:HEC401 3.4 51.3 1.0 CHD D:HEC401 3.4 51.3 1.0 CHB D:HEC401 3.4 48.4 1.0 CHC D:HEC401 3.4 52.4 1.0 CG D:MET248 3.4 59.8 1.0 CB D:MET248 4.0 59.0 1.0 ND1 D:HIS128 4.1 46.9 1.0 CG D:HIS128 4.2 48.6 1.0 C3B D:HEC401 4.3 50.8 1.0 C3C D:HEC401 4.3 55.6 1.0 C2D D:HEC401 4.3 54.2 1.0 C3D D:HEC401 4.3 55.5 1.0 C3A D:HEC401 4.3 49.9 1.0 C2B D:HEC401 4.3 49.1 1.0 C2A D:HEC401 4.3 49.9 1.0 C2C D:HEC401 4.4 52.5 1.0

Iron binding site 6 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ N:Fe501 b:32.8 occ:1.00 FE N:HEM501 0.0 32.8 1.0 ND N:HEM501 1.9 32.2 1.0 NA N:HEM501 2.0 32.7 1.0 NE2 N:HIS82 2.0 29.1 1.0 NC N:HEM501 2.0 32.4 1.0 NE2 N:HIS183 2.1 34.8 1.0 NB N:HEM501 2.1 32.4 1.0 C4D N:HEM501 2.9 33.5 1.0 C1D N:HEM501 2.9 31.8 1.0 C1A N:HEM501 3.0 34.6 1.0 C4A N:HEM501 3.0 33.6 1.0 CE1 N:HIS82 3.0 29.2 1.0 CE1 N:HIS183 3.0 33.7 1.0 C4B N:HEM501 3.0 34.9 1.0 C1C N:HEM501 3.0 34.9 1.0 C4C N:HEM501 3.0 33.1 1.0 C1B N:HEM501 3.1 31.6 1.0 CD2 N:HIS82 3.1 29.4 1.0 CD2 N:HIS183 3.1 35.1 1.0 CHA N:HEM501 3.4 32.4 1.0 CHD N:HEM501 3.4 32.3 1.0 CHC N:HEM501 3.4 34.9 1.0 CHB N:HEM501 3.5 33.1 1.0 C3D N:HEM501 4.1 36.6 1.0 ND1 N:HIS82 4.1 29.7 1.0 ND1 N:HIS183 4.1 33.7 1.0 C2A N:HEM501 4.1 36.5 1.0 C3A N:HEM501 4.1 33.5 1.0 C2D N:HEM501 4.1 33.8 1.0 CG N:HIS82 4.2 30.9 1.0 CG N:HIS183 4.2 34.9 1.0 C2C N:HEM501 4.2 35.4 1.0 C3C N:HEM501 4.2 35.1 1.0 C3B N:HEM501 4.3 34.3 1.0 C2B N:HEM501 4.3 32.4 1.0 CA N:GLY131 4.8 46.2 1.0 NE2 N:GLN43 4.9 38.4 1.0

Iron binding site 7 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ N:Fe502 b:32.2 occ:1.00 FE N:HEM502 0.0 32.2 1.0 ND N:HEM502 1.9 31.9 1.0 NA N:HEM502 1.9 32.9 1.0 NC N:HEM502 2.0 30.7 1.0 NE2 N:HIS96 2.0 35.5 1.0 NB N:HEM502 2.1 32.2 1.0 NE2 N:HIS197 2.2 33.9 1.0 C1D N:HEM502 2.9 30.3 1.0 C4D N:HEM502 2.9 32.3 1.0 C4C N:HEM502 2.9 32.2 1.0 CE1 N:HIS96 2.9 33.5 1.0 C1A N:HEM502 2.9 34.1 1.0 C4A N:HEM502 3.0 35.2 1.0 C1B N:HEM502 3.0 33.8 1.0 C4B N:HEM502 3.0 34.2 1.0 CE1 N:HIS197 3.0 32.2 1.0 C1C N:HEM502 3.0 32.7 1.0 CD2 N:HIS96 3.1 34.5 1.0 CD2 N:HIS197 3.3 33.5 1.0 CHD N:HEM502 3.4 31.7 1.0 CHA N:HEM502 3.4 32.9 1.0 CHB N:HEM502 3.4 34.9 1.0 CHC N:HEM502 3.5 33.0 1.0 ND1 N:HIS96 4.1 34.7 1.0 C3C N:HEM502 4.1 35.8 1.0 C2A N:HEM502 4.1 35.2 1.0 C3A N:HEM502 4.1 34.4 1.0 C2D N:HEM502 4.2 30.7 1.0 C3D N:HEM502 4.2 32.8 1.0 C2C N:HEM502 4.2 34.0 1.0 CG N:HIS96 4.2 33.6 1.0 ND1 N:HIS197 4.2 33.4 1.0 C2B N:HEM502 4.3 34.0 1.0 C3B N:HEM502 4.3 34.1 1.0 CG N:HIS197 4.3 34.2 1.0

Iron binding site 8 out of 8 in the Complex III2 From Yarrowia Lipolytica, Apo, B-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, Apo, B-Position within 5.0Å range: probe atom residue distance (Å) B Occ O:Fe401 b:50.2 occ:1.00 FE O:HEC401 0.0 50.2 1.0 NE2 O:HIS128 2.0 49.6 1.0 NB O:HEC401 2.0 48.9 1.0 NC O:HEC401 2.0 53.3 1.0 ND O:HEC401 2.0 51.2 1.0 NA O:HEC401 2.1 50.3 1.0 SD O:MET248 2.3 57.6 1.0 CE1 O:HIS128 2.9 48.6 1.0 C4B O:HEC401 3.0 50.3 1.0 CD2 O:HIS128 3.0 47.5 1.0 C4D O:HEC401 3.0 53.3 1.0 C4C O:HEC401 3.0 54.3 1.0 C1B O:HEC401 3.0 51.0 1.0 C1A O:HEC401 3.0 50.2 1.0 C1C O:HEC401 3.0 55.9 1.0 C1D O:HEC401 3.1 52.3 1.0 C4A O:HEC401 3.1 51.4 1.0 CE O:MET248 3.3 54.4 1.0 CHA O:HEC401 3.4 51.0 1.0 CHD O:HEC401 3.4 50.7 1.0 CHC O:HEC401 3.4 51.8 1.0 CHB O:HEC401 3.4 50.3 1.0 CG O:MET248 3.5 55.7 1.0 ND1 O:HIS128 4.0 46.2 1.0 CB O:MET248 4.1 58.1 1.0 CG O:HIS128 4.1 48.6 1.0 C3B O:HEC401 4.3 52.1 1.0 C3C O:HEC401 4.3 55.7 1.0 C3D O:HEC401 4.3 54.9 1.0 C2B O:HEC401 4.3 52.2 1.0 C2C O:HEC401 4.3 56.2 1.0 C2A O:HEC401 4.4 52.3 1.0 C2D O:HEC401 4.4 53.2 1.0 C3A O:HEC401 4.4 53.1 1.0

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