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Iron in PDB 7d6x: Mycobacterium Smegmatis SDH1 Complex in the Apo Form

Iron Binding Sites:

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Binding sites:

The binding sites of Iron atom in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form (pdb code 7d6x). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 11 binding sites of Iron where determined in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form, PDB code: 7d6x:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 11 in 7d6x

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Iron binding site 1 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:20.0
occ:1.00
 FE1 B:FES301 0.0 20.0 1.0
S1 B:FES301 2.2 20.0 1.0
S2 B:FES301 2.2 20.0 1.0
SG B:CYS59 2.4 44.0 1.0
SG B:CYS54 2.6 47.8 1.0
FE2 B:FES301 3.1 20.0 1.0
N B:CYS54 3.6 47.8 1.0
N B:LYS55 3.7 49.7 1.0
CB B:CYS54 3.8 47.8 1.0
CA B:CYS54 3.8 47.8 1.0
CB B:CYS59 3.8 44.0 1.0
N B:CYS59 4.1 44.0 1.0
C B:CYS54 4.1 47.8 1.0
CA B:CYS59 4.2 44.0 1.0
N B:GLY57 4.5 47.2 1.0
N B:LYS58 4.6 45.3 1.0
SG B:CYS74 4.6 44.8 1.0
N B:GLY60 4.6 39.1 1.0
N B:ALA56 4.6 49.0 1.0
CA B:GLY57 4.7 47.2 1.0
CA B:LYS55 4.7 49.7 1.0
C B:ASN53 4.8 43.6 1.0
N B:ASN53 4.8 43.6 1.0
N B:SER61 4.8 36.9 1.0
C B:LYS58 4.9 45.3 1.0
CB B:SER61 4.9 36.9 1.0

Iron binding site 2 out of 11 in 7d6x

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Iron binding site 2 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:20.0
occ:1.00
 FE2 B:FES301 0.0 20.0 1.0
S1 B:FES301 2.2 20.0 1.0
S2 B:FES301 2.2 20.0 1.0
SG B:CYS62 2.4 38.6 1.0
SG B:CYS74 2.5 44.8 1.0
CB B:CYS74 2.8 44.8 1.0
FE1 B:FES301 3.1 20.0 1.0
CB B:CYS62 3.3 38.6 1.0
N B:CYS74 3.9 44.8 1.0
CA B:CYS74 4.0 44.8 1.0
N B:CYS62 4.2 38.6 1.0
CA B:CYS62 4.3 38.6 1.0
N B:GLY57 4.5 47.2 1.0
N B:LYS55 4.5 49.7 1.0
CD1 B:LEU34 4.6 44.8 1.0
CB B:LEU72 4.7 40.1 1.0
CA B:GLY57 4.8 47.2 1.0
C B:CYS74 4.8 44.8 1.0
CA B:LYS55 4.9 49.7 1.0
CD1 B:LEU72 4.9 40.1 1.0

Iron binding site 3 out of 11 in 7d6x

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Iron binding site 3 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:20.0
occ:1.00
 FE1 B:SF4302 0.0 20.0 1.0
S4 B:SF4302 2.1 20.0 1.0
S2 B:SF4302 2.1 20.0 1.0
S3 B:SF4302 2.1 20.0 1.0
CB B:CYS151 2.4 33.3 1.0
SG B:CYS151 2.4 33.3 1.0
FE3 B:SF4302 3.0 20.0 1.0
FE2 B:SF4302 3.0 20.0 1.0
FE4 B:SF4302 3.0 20.0 1.0
N B:CYS151 3.5 33.3 1.0
CA B:CYS151 3.5 33.3 1.0
S1 B:SF4302 3.7 20.0 1.0
CD1 B:ILE219 4.2 35.9 1.0
CB B:ARG172 4.5 35.0 1.0
C B:CYS151 4.6 33.3 1.0
N B:GLN152 4.6 33.9 1.0
N B:LEU150 4.7 33.4 1.0
SG B:CYS148 4.7 34.9 1.0
C B:LEU150 4.7 33.4 1.0
N B:PHE149 4.8 33.4 1.0
CA B:PHE149 4.9 33.4 1.0
CD B:ARG172 4.9 35.0 1.0
CA B:ARG172 5.0 35.0 1.0

Iron binding site 4 out of 11 in 7d6x

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Iron binding site 4 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:20.0
occ:1.00
 FE2 B:SF4302 0.0 20.0 1.0
S4 B:SF4302 2.1 20.0 1.0
S3 B:SF4302 2.1 20.0 1.0
S1 B:SF4302 2.1 20.0 1.0
SG B:CYS145 2.4 37.1 1.0
FE4 B:SF4302 3.0 20.0 1.0
FE3 B:SF4302 3.0 20.0 1.0
FE1 B:SF4302 3.0 20.0 1.0
CB B:CYS145 3.6 37.1 1.0
O B:ILE146 3.7 38.4 1.0
S2 B:SF4302 3.7 20.0 1.0
CD B:ARG172 3.9 35.0 1.0
CA B:CYS145 4.2 37.1 1.0
CE B:MET175 4.3 36.9 1.0
NE B:ARG172 4.4 35.0 1.0
C B:CYS145 4.4 37.1 1.0
C B:ILE146 4.6 38.4 1.0
O B:CYS145 4.6 37.1 1.0
N B:CYS148 4.8 34.9 1.0
N B:ILE146 4.8 38.4 1.0
CG B:ARG172 4.8 35.0 1.0
SG B:CYS151 4.9 33.3 1.0
CA B:GLU147 4.9 35.4 1.0
CD1 B:ILE217 4.9 36.9 1.0

Iron binding site 5 out of 11 in 7d6x

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Iron binding site 5 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:20.0
occ:1.00
 FE3 B:SF4302 0.0 20.0 1.0
S2 B:SF4302 2.1 20.0 1.0
S1 B:SF4302 2.1 20.0 1.0
S4 B:SF4302 2.1 20.0 1.0
SG B:CYS148 2.4 34.9 1.0
FE2 B:SF4302 3.0 20.0 1.0
FE4 B:SF4302 3.0 20.0 1.0
FE1 B:SF4302 3.0 20.0 1.0
CB B:CYS148 3.2 34.9 1.0
O B:ILE146 3.7 38.4 1.0
N B:CYS148 3.7 34.9 1.0
S3 B:SF4302 3.7 20.0 1.0
N B:PHE149 3.8 33.4 1.0
CD B:PRO214 3.8 35.7 1.0
CA B:CYS148 3.9 34.9 1.0
N B:LEU150 4.2 33.4 1.0
C B:CYS148 4.2 34.9 1.0
N B:CYS151 4.5 33.3 1.0
CB B:LEU150 4.6 33.4 1.0
CG B:PRO214 4.7 35.7 1.0
CA B:PHE149 4.7 33.4 1.0
CA B:CYS213 4.8 36.2 1.0
SG B:CYS213 4.8 36.2 1.0
C B:GLU147 4.9 35.4 1.0
C B:ILE146 4.9 38.4 1.0
CA B:LEU150 4.9 33.4 1.0
C B:PHE149 4.9 33.4 1.0
N B:PRO214 4.9 35.7 1.0
CB B:CYS151 4.9 33.3 1.0

Iron binding site 6 out of 11 in 7d6x

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Iron binding site 6 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:20.0
occ:1.00
 FE4 B:SF4302 0.0 20.0 1.0
S3 B:SF4302 2.1 20.0 1.0
S1 B:SF4302 2.1 20.0 1.0
S2 B:SF4302 2.1 20.0 1.0
SG B:CYS213 2.4 36.2 1.0
CB B:CYS213 2.8 36.2 1.0
FE2 B:SF4302 3.0 20.0 1.0
FE3 B:SF4302 3.0 20.0 1.0
FE1 B:SF4302 3.0 20.0 1.0
CA B:CYS213 3.5 36.2 1.0
S4 B:SF4302 3.7 20.0 1.0
CD1 B:ILE219 4.0 35.9 1.0
CD B:PRO214 4.3 35.7 1.0
C B:CYS213 4.3 36.2 1.0
CD1 B:ILE217 4.5 36.9 1.0
N B:PRO214 4.5 35.7 1.0
N B:CYS213 4.6 36.2 1.0
CB B:CYS151 4.8 33.3 1.0
CG1 B:ILE219 4.8 35.9 1.0
CG1 B:ILE217 4.9 36.9 1.0
CB B:ILE217 4.9 36.9 1.0
N B:GLU215 5.0 38.7 1.0

Iron binding site 7 out of 11 in 7d6x

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Iron binding site 7 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:20.0
occ:1.00
 FE1 B:F3S303 0.0 20.0 1.0
S3 B:F3S303 2.0 20.0 1.0
SG B:CYS203 2.1 35.6 1.0
S2 B:F3S303 2.1 20.0 1.0
S1 B:F3S303 2.1 20.0 1.0
FE3 B:F3S303 2.8 20.0 1.0
FE4 B:F3S303 2.8 20.0 1.0
O B:ASN204 3.2 38.0 1.0
CB B:CYS203 3.6 35.6 1.0
S4 B:F3S303 3.7 20.0 1.0
CA B:CYS203 4.3 35.6 1.0
C B:ASN204 4.3 38.0 1.0
O B:THR206 4.3 36.8 1.0
CD1 B:LEU224 4.3 36.0 1.0
O B:LYS207 4.5 38.7 1.0
C B:CYS203 4.6 35.6 1.0
N B:ASN204 4.6 38.0 1.0
OD1 B:ASN204 4.9 38.0 1.0
CA B:ILE205 5.0 37.9 1.0
SG B:CYS155 5.0 35.4 1.0
SG B:CYS209 5.0 37.9 1.0

Iron binding site 8 out of 11 in 7d6x

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Iron binding site 8 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:20.0
occ:1.00
 FE3 B:F3S303 0.0 20.0 1.0
S3 B:F3S303 2.1 20.0 1.0
S1 B:F3S303 2.1 20.0 1.0
S4 B:F3S303 2.1 20.0 1.0
SG B:CYS155 2.5 35.4 1.0
FE1 B:F3S303 2.8 20.0 1.0
FE4 B:F3S303 3.0 20.0 1.0
CB B:CYS155 3.1 35.4 1.0
CA B:CYS155 3.6 35.4 1.0
S2 B:F3S303 4.0 20.0 1.0
C B:CYS155 4.4 35.4 1.0
N B:HIS156 4.5 36.4 1.0
SG B:CYS203 4.5 35.6 1.0
CG2 B:VAL157 4.5 36.5 1.0
CD2 B:HIS156 4.6 36.4 1.0
N B:CYS155 4.7 35.4 1.0
CE2 B:PHE168 4.7 36.2 1.0
CD B:PRO171 4.7 34.2 1.0
CG B:PRO171 4.8 34.2 1.0
O B:LYS207 4.8 38.7 1.0

Iron binding site 9 out of 11 in 7d6x

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Iron binding site 9 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe303

b:20.0
occ:1.00
 FE4 B:F3S303 0.0 20.0 1.0
S2 B:F3S303 2.1 20.0 1.0
S4 B:F3S303 2.1 20.0 1.0
S3 B:F3S303 2.1 20.0 1.0
SG B:CYS209 2.5 37.9 1.0
O B:LYS207 2.8 38.7 1.0
CB B:CYS209 2.8 37.9 1.0
FE1 B:F3S303 2.8 20.0 1.0
FE3 B:F3S303 3.0 20.0 1.0
N B:CYS209 3.8 37.9 1.0
CA B:CYS209 3.9 37.9 1.0
S1 B:F3S303 3.9 20.0 1.0
C B:LYS207 4.0 38.7 1.0
CD1 B:LEU224 4.3 36.0 1.0
CB B:PRO171 4.3 34.2 1.0
O B:THR206 4.4 36.8 1.0
OG1 B:THR220 4.5 37.4 1.0
CG B:PRO171 4.6 34.2 1.0
CA B:LYS207 4.6 38.7 1.0
C B:CYS208 4.7 40.6 1.0
SG B:CYS203 4.7 35.6 1.0
N B:CYS208 5.0 40.6 1.0

Iron binding site 10 out of 11 in 7d6x

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Iron binding site 10 out of 11 in the Mycobacterium Smegmatis SDH1 Complex in the Apo Form


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Mycobacterium Smegmatis SDH1 Complex in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe302

b:20.0
occ:1.00
 FE1 C:FES302 0.0 20.0 1.0
NE2 C:HIS155 1.8 36.2 1.0
S1 C:FES302 2.2 20.0 1.0
S2 C:FES302 2.2 20.0 1.0
SG C:CYS206 2.5 37.3 1.0
CE1 C:HIS155 2.8 36.2 1.0
CD2 C:HIS155 2.9 36.2 1.0
CB C:CYS206 3.0 37.3 1.0
FE2 C:FES302 3.1 20.0 1.0
CA C:CYS206 3.7 37.3 1.0
ND1 C:HIS155 3.9 36.2 1.0
N C:HIS207 3.9 36.5 1.0
CG C:HIS155 4.0 36.2 1.0
CE1 C:PHE110 4.1 38.0 1.0
C C:CYS206 4.3 37.3 1.0
NE2 C:HIS240 4.3 37.5 1.0
CZ C:PHE110 4.4 38.0 1.0
N C:SER208 4.5 37.2 1.0
OG C:SER208 4.5 37.2 1.0
CA C:CYS114 4.8 36.5 1.0
SG C:CYS114 4.8 36.5 1.0
CB C:SER208 4.9 37.2 1.0
CE1 C:HIS240 4.9 37.5 1.0
N C:TYR115 4.9 35.0 1.0
CB C:CYS114 5.0 36.5 1.0
N C:CYS206 5.0 37.3 1.0
CD2 C:TYR115 5.0 35.0 1.0

Reference:

X.Zhou, Y.Gao, Q.Wang, H.Gong, Z.Rao. Mycobacterium Smegmatis SDH1 Complex in the Apo Form Proc.Natl.Acad.Sci.Usa 2021.
ISSN: ESSN 1091-6490
DOI: 10.1073/PNAS.2022308118
Page generated: Thu Aug 8 03:41:46 2024

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