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Iron in PDB 6wu6: Succinate-Coenzyme Q Reductase

Enzymatic activity of Succinate-Coenzyme Q Reductase

All present enzymatic activity of Succinate-Coenzyme Q Reductase:
1.3.5.1;

Other elements in 6wu6:

The structure of Succinate-Coenzyme Q Reductase also contains other interesting chemical elements:

Sodium (Na) 3 atoms

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30;

Binding sites:

The binding sites of Iron atom in the Succinate-Coenzyme Q Reductase (pdb code 6wu6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 30 binding sites of Iron where determined in the Succinate-Coenzyme Q Reductase, PDB code: 6wu6:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 30 in 6wu6

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Iron binding site 1 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:66.4
occ:1.00
 FE1 B:FES301 0.0 66.4 1.0
S1 B:FES301 2.2 66.4 1.0
S2 B:FES301 2.2 66.4 1.0
OG B:SER62 2.7 41.6 1.0
SG B:CYS60 2.8 34.0 1.0
N B:CYS55 2.9 26.5 1.0
SG B:CYS55 2.9 26.5 1.0
CB B:CYS55 3.0 26.5 1.0
CB B:SER54 3.0 37.1 1.0
FE2 B:FES301 3.1 66.4 1.0
CB B:SER62 3.1 41.6 1.0
CA B:CYS55 3.5 26.5 1.0
CA B:SER54 3.6 37.1 1.0
C B:SER54 3.6 37.1 1.0
OG B:SER54 3.7 37.1 1.0
N B:SER54 3.8 37.1 1.0
N B:SER62 4.1 41.6 1.0
CA B:SER62 4.2 41.6 1.0
N B:CYS60 4.3 34.0 1.0
CB B:CYS60 4.3 34.0 1.0
C B:CYS55 4.4 26.5 1.0
C B:CYS60 4.5 34.0 1.0
O B:CYS60 4.6 34.0 1.0
CA B:CYS60 4.6 34.0 1.0
N B:ARG56 4.6 33.0 1.0
OD1 B:ASP63 4.6 45.0 1.0
N B:VAL59 4.7 35.8 1.0
O B:SER54 4.8 37.1 1.0
N B:GLY58 4.8 42.8 1.0
N B:GLY61 4.9 36.9 1.0
CA B:GLY58 5.0 42.8 1.0

Iron binding site 2 out of 30 in 6wu6

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Iron binding site 2 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:66.4
occ:1.00
 FE2 B:FES301 0.0 66.4 1.0
S1 B:FES301 2.2 66.4 1.0
S2 B:FES301 2.2 66.4 1.0
OD1 B:ASP63 2.6 45.0 1.0
OG B:SER62 2.7 41.6 1.0
SG B:CYS75 2.9 51.1 1.0
FE1 B:FES301 3.1 66.4 1.0
CA B:GLY58 3.4 42.8 1.0
CB B:CYS75 3.5 51.1 1.0
CG B:ASP63 3.6 45.0 1.0
N B:GLY58 3.6 42.8 1.0
SG B:CYS55 3.6 26.5 1.0
OD2 B:ASP63 3.8 45.0 1.0
CB B:SER62 4.1 41.6 1.0
N B:ASP63 4.4 45.0 1.0
C B:GLY58 4.5 42.8 1.0
N B:CYS75 4.5 51.1 1.0
N B:SER62 4.5 41.6 1.0
N B:VAL59 4.6 35.8 1.0
CA B:CYS75 4.6 51.1 1.0
N B:ARG56 4.6 33.0 1.0
N B:CYS55 4.6 26.5 1.0
CA B:SER62 4.8 41.6 1.0
CB B:CYS55 4.8 26.5 1.0
C B:GLU57 4.9 34.8 1.0
N B:GLU57 4.9 34.8 1.0
CB B:ASP63 4.9 45.0 1.0

Iron binding site 3 out of 30 in 6wu6

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Iron binding site 3 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:55.3
occ:1.00
 FE1 B:SF4302 0.0 55.3 1.0
S2 B:SF4302 2.3 55.3 1.0
S4 B:SF4302 2.3 55.3 1.0
S3 B:SF4302 2.3 55.3 1.0
SG B:CYS152 2.7 46.0 1.0
FE3 B:SF4302 2.7 55.3 1.0
FE2 B:SF4302 2.7 55.3 1.0
FE4 B:SF4302 2.7 55.3 1.0
CD B:PRO217 3.1 39.7 1.0
CG B:PRO217 3.4 39.7 1.0
S1 B:SF4302 3.9 55.3 1.0
CB B:CYS154 4.1 52.0 1.0
N B:CYS154 4.1 52.0 1.0
N B:CYS152 4.1 46.0 1.0
CB B:CYS152 4.2 46.0 1.0
SG B:CYS154 4.3 52.0 1.0
N B:ALA153 4.4 52.9 1.0
N B:PRO217 4.5 39.7 1.0
CA B:CYS152 4.5 46.0 1.0
N B:CYS155 4.5 52.6 1.0
CB B:PRO217 4.5 39.7 1.0
C B:CYS152 4.6 46.0 1.0
SG B:CYS216 4.7 51.9 1.0
CA B:CYS154 4.7 52.0 1.0
CG1 B:ILE150 4.9 36.6 1.0

Iron binding site 4 out of 30 in 6wu6

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Iron binding site 4 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:55.3
occ:1.00
 FE2 B:SF4302 0.0 55.3 1.0
S1 B:SF4302 2.3 55.3 1.0
S3 B:SF4302 2.3 55.3 1.0
S4 B:SF4302 2.3 55.3 1.0
FE3 B:SF4302 2.7 55.3 1.0
FE4 B:SF4302 2.7 55.3 1.0
FE1 B:SF4302 2.7 55.3 1.0
SG B:CYS155 3.0 52.6 1.0
CB B:CYS155 3.5 52.6 1.0
S2 B:SF4302 3.9 55.3 1.0
N B:CYS155 4.1 52.6 1.0
CB B:ALA173 4.1 36.5 1.0
SG B:CYS149 4.3 38.7 1.0
CA B:CYS155 4.4 52.6 1.0
N B:CYS154 4.7 52.0 1.0
N B:SER156 4.8 49.8 1.0
N B:ALA153 5.0 52.9 1.0

Iron binding site 5 out of 30 in 6wu6

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Iron binding site 5 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:55.3
occ:1.00
 FE3 B:SF4302 0.0 55.3 1.0
S4 B:SF4302 2.3 55.3 1.0
S1 B:SF4302 2.3 55.3 1.0
S2 B:SF4302 2.3 55.3 1.0
FE2 B:SF4302 2.7 55.3 1.0
FE4 B:SF4302 2.7 55.3 1.0
FE1 B:SF4302 2.7 55.3 1.0
SG B:CYS149 2.8 38.7 1.0
N B:ILE150 3.6 36.6 1.0
CA B:CYS149 3.7 38.7 1.0
N B:LEU151 3.8 34.9 1.0
CB B:CYS149 3.8 38.7 1.0
S3 B:SF4302 3.9 55.3 1.0
C B:CYS149 4.0 38.7 1.0
CD1 B:LEU220 4.1 47.0 1.0
N B:CYS152 4.3 46.0 1.0
SG B:CYS152 4.4 46.0 1.0
CA B:LEU151 4.4 34.9 1.0
C B:ILE150 4.5 36.6 1.0
CG1 B:ILE150 4.5 36.6 1.0
CA B:ILE150 4.5 36.6 1.0
C B:LEU151 4.9 34.9 1.0
CB B:ALA173 4.9 36.5 1.0
O B:CYS149 5.0 38.7 1.0

Iron binding site 6 out of 30 in 6wu6

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Iron binding site 6 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:55.3
occ:1.00
 FE4 B:SF4302 0.0 55.3 1.0
S3 B:SF4302 2.3 55.3 1.0
S1 B:SF4302 2.3 55.3 1.0
S2 B:SF4302 2.3 55.3 1.0
FE2 B:SF4302 2.7 55.3 1.0
FE3 B:SF4302 2.7 55.3 1.0
FE1 B:SF4302 2.7 55.3 1.0
SG B:CYS216 2.8 51.9 1.0
CD1 B:LEU220 3.2 47.0 1.0
CD B:PRO217 3.8 39.7 1.0
S4 B:SF4302 3.9 55.3 1.0
CB B:CYS216 4.0 51.9 1.0
CG B:LEU220 4.1 47.0 1.0
CB B:LEU220 4.4 47.0 1.0
CA B:CYS216 4.5 51.9 1.0
N B:PRO217 4.6 39.7 1.0
N B:LYS218 4.8 38.6 1.0
CB B:CYS155 4.9 52.6 1.0
CG B:PRO217 4.9 39.7 1.0
SG B:CYS149 5.0 38.7 1.0
CB B:LYS218 5.0 38.6 1.0

Iron binding site 7 out of 30 in 6wu6

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Iron binding site 7 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:67.0
occ:1.00
 FE1 B:F3S303 0.0 67.0 1.0
S1 B:F3S303 2.2 67.0 1.0
S2 B:F3S303 2.3 67.0 1.0
S3 B:F3S303 2.3 67.0 1.0
FE4 B:F3S303 2.7 67.0 1.0
FE3 B:F3S303 2.7 67.0 1.0
SG B:CYS212 2.8 53.3 1.0
N B:MET210 3.4 62.9 1.0
CA B:MET210 3.7 62.9 1.0
S4 B:F3S303 3.9 67.0 1.0
CB B:CYS212 4.3 53.3 1.0
N B:ILE209 4.4 57.4 1.0
CB B:ILE209 4.4 57.4 1.0
C B:ILE209 4.4 57.4 1.0
OD1 B:ASN211 4.4 60.9 1.0
C B:MET210 4.5 62.9 1.0
SG B:CYS159 4.5 55.8 1.0
CA B:ILE209 4.6 57.4 1.0
N B:ASN211 4.7 60.9 1.0
OG1 B:THR223 4.7 41.2 1.0
SG B:CYS206 4.7 58.2 1.0
N B:CYS212 4.9 53.3 1.0
CG1 B:ILE209 5.0 57.4 1.0
CB B:MET210 5.0 62.9 1.0

Iron binding site 8 out of 30 in 6wu6

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Iron binding site 8 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:67.0
occ:1.00
 FE3 B:F3S303 0.0 67.0 1.0
S1 B:F3S303 2.2 67.0 1.0
S4 B:F3S303 2.3 67.0 1.0
S3 B:F3S303 2.3 67.0 1.0
SG B:CYS206 2.7 58.2 1.0
FE4 B:F3S303 2.7 67.0 1.0
FE1 B:F3S303 2.7 67.0 1.0
CG1 B:ILE226 3.9 40.1 1.0
S2 B:F3S303 3.9 67.0 1.0
CB B:CYS206 4.0 58.2 1.0
CD1 B:ILE226 4.3 40.1 1.0
SG B:CYS159 4.5 55.8 1.0
CB B:ILE226 4.8 40.1 1.0
CZ B:PHE169 4.9 57.4 1.0
CG2 B:ILE226 4.9 40.1 1.0

Iron binding site 9 out of 30 in 6wu6

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Iron binding site 9 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:67.0
occ:1.00
 FE4 B:F3S303 0.0 67.0 1.0
S4 B:F3S303 2.2 67.0 1.0
S2 B:F3S303 2.3 67.0 1.0
S3 B:F3S303 2.3 67.0 1.0
FE1 B:F3S303 2.7 67.0 1.0
FE3 B:F3S303 2.7 67.0 1.0
SG B:CYS159 2.8 55.8 1.0
CG1 B:ILE209 3.2 57.4 1.0
OG B:SER161 3.4 56.4 1.0
SG B:CYS206 3.5 58.2 1.0
CB B:ILE209 3.5 57.4 1.0
N B:ILE209 3.7 57.4 1.0
S1 B:F3S303 3.9 67.0 1.0
CA B:ILE209 4.2 57.4 1.0
CB B:CYS159 4.3 55.8 1.0
N B:MET210 4.4 62.9 1.0
CD1 B:ILE209 4.4 57.4 1.0
CB B:SER161 4.6 56.4 1.0
N B:SER208 4.8 50.2 1.0
C B:SER208 4.8 50.2 1.0
CG2 B:ILE209 4.8 57.4 1.0
CB B:CYS206 4.8 58.2 1.0
C B:ILE209 4.8 57.4 1.0
N B:HIS207 4.9 53.0 1.0
CA B:CYS159 4.9 55.8 1.0
CD B:PRO160 4.9 53.8 1.0
CA B:SER208 5.0 50.2 1.0

Iron binding site 10 out of 30 in 6wu6

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Iron binding site 10 out of 30 in the Succinate-Coenzyme Q Reductase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Succinate-Coenzyme Q Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:28.1
occ:1.00
 FE C:HEM201 0.0 28.1 1.0
NC C:HEM201 2.0 28.1 1.0
NB C:HEM201 2.0 28.1 1.0
ND C:HEM201 2.0 28.1 1.0
NA C:HEM201 2.1 28.1 1.0
NE2 C:HIS84 2.6 33.8 1.0
NE2 D:HIS71 2.8 20.4 1.0
C4A C:HEM201 3.0 28.1 1.0
C1A C:HEM201 3.0 28.1 1.0
C1C C:HEM201 3.0 28.1 1.0
C1D C:HEM201 3.0 28.1 1.0
C4D C:HEM201 3.0 28.1 1.0
C4C C:HEM201 3.0 28.1 1.0
C1B C:HEM201 3.0 28.1 1.0
C4B C:HEM201 3.1 28.1 1.0
CD2 C:HIS84 3.2 33.8 1.0
CE1 D:HIS71 3.3 20.4 1.0
CHB C:HEM201 3.3 28.1 1.0
CHC C:HEM201 3.4 28.1 1.0
CHD C:HEM201 3.4 28.1 1.0
CHA C:HEM201 3.4 28.1 1.0
CD2 D:HIS71 3.7 20.4 1.0
CE1 C:HIS84 3.8 33.8 1.0
C3A C:HEM201 4.1 28.1 1.0
C2A C:HEM201 4.1 28.1 1.0
C2D C:HEM201 4.2 28.1 1.0
C3D C:HEM201 4.2 28.1 1.0
C2C C:HEM201 4.2 28.1 1.0
C3C C:HEM201 4.2 28.1 1.0
C2B C:HEM201 4.3 28.1 1.0
C3B C:HEM201 4.3 28.1 1.0
ND1 D:HIS71 4.4 20.4 1.0
CG C:HIS84 4.5 33.8 1.0
CG D:HIS71 4.6 20.4 1.0
ND1 C:HIS84 4.7 33.8 1.0

Reference:

C.C.Su, M.Lyu, C.E.Morgan, J.R.Bolla, C.V.Robinson, E.W.Yu. A 'Build and Retrieve' Methodology to Simultaneously Solve Cryo-Em Structures of Membrane Proteins. Nat.Methods V. 18 69 2021.
ISSN: ESSN 1548-7105
PubMed: 33408407
DOI: 10.1038/S41592-020-01021-2
Page generated: Wed Aug 7 14:20:13 2024

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