Iron in PDB 9hfm: Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D)

The structure of Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) also contains other interesting chemical elements:

Potassium	(K)	1 atom
Zinc	(Zn)	1 atom
Magnesium	(Mg)	44 atoms

The binding sites of Iron atom in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) (pdb code 9hfm). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D), PDB code: 9hfm:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) within 5.0Å range: probe atom residue distance (Å) B Occ P:Fe201 b:129.2 occ:1.00 FE1 P:FES201 0.0 129.2 1.0 S2 P:FES201 2.2 101.6 1.0 S1 P:FES201 2.2 85.2 1.0 SG P:CYS68 2.3 97.4 1.0 SG E:CYS105 2.3 98.1 1.0 FE2 P:FES201 2.7 105.7 1.0 CB E:CYS105 2.9 108.1 1.0 CB P:CYS68 3.0 76.2 1.0 SG P:CYS65 3.6 73.1 1.0 O E:CYS105 3.8 121.6 1.0 CA P:CYS68 3.8 65.9 1.0 CA E:CYS105 4.1 118.2 1.0 C E:CYS105 4.2 124.7 1.0 N P:CYS65 4.6 87.0 1.0 CA E:GLY107 4.6 127.1 1.0 N E:GLY107 4.7 128.6 1.0 N P:CYS68 4.8 63.6 1.0 CG P:LYS64 4.8 112.9 1.0 SG P:CYS100 4.8 70.8 1.0 C E:GLY107 4.8 130.0 1.0 C P:CYS68 4.9 61.1 1.0 N E:CYS105 5.0 117.5 1.0 CB P:CYS65 5.0 71.3 1.0

Iron binding site 2 out of 4 in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) within 5.0Å range: probe atom residue distance (Å) B Occ P:Fe201 b:105.7 occ:1.00 FE2 P:FES201 0.0 105.7 1.0 S2 P:FES201 2.2 101.6 1.0 S1 P:FES201 2.2 85.2 1.0 SG P:CYS100 2.3 70.8 1.0 SG P:CYS65 2.3 73.1 1.0 CB P:CYS100 2.6 58.7 1.0 FE1 P:FES201 2.7 129.2 1.0 CB P:CYS65 3.6 71.3 1.0 SG E:CYS105 3.8 98.1 1.0 CG P:LYS103 3.8 55.0 1.0 CA P:CYS100 3.9 49.2 1.0 N P:CYS100 4.1 47.3 1.0 CB P:LYS103 4.4 49.2 1.0 N P:CYS65 4.5 87.0 1.0 CB P:CYS68 4.5 76.2 1.0 CG1 E:ILE108 4.5 112.5 1.0 CA P:CYS65 4.6 76.3 1.0 SG P:CYS68 4.7 97.4 1.0 CB E:CYS105 4.7 108.1 1.0 CA P:CYS68 4.8 65.9 1.0 C P:CYS100 4.8 47.1 1.0 N P:LYS103 4.9 43.7 1.0 CE P:LYS102 4.9 79.1 1.0 CD1 E:ILE108 5.0 103.9 1.0

Iron binding site 3 out of 4 in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) within 5.0Å range: probe atom residue distance (Å) B Occ T:Fe201 b:75.8 occ:1.00 FE1 T:FES201 0.0 75.8 1.0 S1 T:FES201 2.2 67.2 1.0 S2 T:FES201 2.2 57.3 1.0 SG T:CYS149 2.3 48.5 1.0 SG M:CYS26 2.3 44.5 1.0 FE2 T:FES201 2.7 80.5 1.0 CB M:CYS26 3.6 30.4 1.0 CB T:CYS149 3.6 39.9 1.0 SG T:CYS141 4.0 48.6 1.0 CA T:CYS149 4.1 31.6 1.0 N M:CYS26 4.1 26.4 1.0 CD T:PRO150 4.2 34.6 1.0 CA M:CYS26 4.5 27.8 1.0 C M:GLY25 4.5 28.6 1.0 SG T:CYS139 4.6 51.4 1.0 CB T:CYS141 4.8 36.1 1.0 CA M:GLY25 4.9 29.2 1.0 N T:PRO150 4.9 28.7 1.0 C T:CYS149 4.9 32.6 1.0

Iron binding site 4 out of 4 in the Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Translation-Initiation State of Human Mitochondrial Ribosome Small Subunit (State D) within 5.0Å range: probe atom residue distance (Å) B Occ T:Fe201 b:80.5 occ:1.00 FE2 T:FES201 0.0 80.5 1.0 S2 T:FES201 2.2 57.3 1.0 S1 T:FES201 2.2 67.2 1.0 SG T:CYS141 2.3 48.6 1.0 SG T:CYS139 2.3 51.4 1.0 CB T:CYS139 2.6 37.0 1.0 FE1 T:FES201 2.7 75.8 1.0 CB T:CYS141 3.2 36.1 1.0 CA T:CYS139 4.0 33.7 1.0 N T:CYS141 4.1 27.6 1.0 SG T:CYS149 4.1 48.5 1.0 CA T:CYS141 4.2 31.6 1.0 C T:CYS139 4.5 33.5 1.0 CB T:CYS149 4.6 39.9 1.0 SG M:CYS26 4.7 44.5 1.0 CA M:GLY25 4.8 29.2 1.0 N T:ILE140 4.8 31.5 1.0 N T:CYS139 4.9 35.5 1.0 CA T:CYS149 5.0 31.6 1.0

M.Heinrichs, A.F.Finke, S.Aibara, H.S.Hillen, R.Richter-Dennerlein. Coupling of Ribosome Biogenesis and Translation Initiation in Human Mitochondria Nat Commun 2025.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-025-58827-X