Atomistry » Iron » PDB 8css-8djt » 8css
Atomistry »
  Iron »
    PDB 8css-8djt »
      8css »

Iron in PDB 8css: Human Mitochondrial Small Subunit Assembly Intermediate (State D)

Enzymatic activity of Human Mitochondrial Small Subunit Assembly Intermediate (State D)

All present enzymatic activity of Human Mitochondrial Small Subunit Assembly Intermediate (State D):
2.3.1.39;

Other elements in 8css:

The structure of Human Mitochondrial Small Subunit Assembly Intermediate (State D) also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Magnesium (Mg) 32 atoms
Potassium (K) 7 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Human Mitochondrial Small Subunit Assembly Intermediate (State D) (pdb code 8css). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Human Mitochondrial Small Subunit Assembly Intermediate (State D), PDB code: 8css:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 1 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Fe501

b:33.7
occ:1.00
 FE1 7:SF4501 0.0 33.7 1.0
S2 7:SF4501 2.2 33.7 1.0
SG 7:CYS404 2.3 24.5 1.0
S4 7:SF4501 2.3 33.7 1.0
S3 7:SF4501 2.3 33.7 1.0
FE4 7:SF4501 2.7 33.7 1.0
FE3 7:SF4501 2.7 33.7 1.0
FE2 7:SF4501 2.8 33.7 1.0
CB 7:CYS404 3.3 24.5 1.0
S1 7:SF4501 3.9 33.7 1.0
CD 7:PRO340 4.3 24.6 1.0
NE2 7:HIS335 4.4 22.6 1.0
CD 7:PRO334 4.5 24.2 1.0
CG 7:PRO340 4.7 24.6 1.0
CA 7:CYS404 4.7 24.5 1.0
CA 7:CYS333 4.7 22.7 1.0
SG 7:CYS333 4.7 22.7 1.0
SG 7:CYS339 4.8 22.9 1.0
CB 7:CYS333 4.8 22.7 1.0
CG2 7:THR389 4.8 21.5 1.0
SG 7:CYS347 4.9 19.2 1.0
SD 7:MET410 4.9 28.1 1.0

Iron binding site 2 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 2 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Fe501

b:33.7
occ:1.00
 FE2 7:SF4501 0.0 33.7 1.0
S1 7:SF4501 2.2 33.7 1.0
SG 7:CYS347 2.3 19.2 1.0
S3 7:SF4501 2.3 33.7 1.0
S4 7:SF4501 2.3 33.7 1.0
FE4 7:SF4501 2.7 33.7 1.0
FE3 7:SF4501 2.7 33.7 1.0
FE1 7:SF4501 2.8 33.7 1.0
CB 7:CYS347 3.2 19.2 1.0
S2 7:SF4501 3.9 33.7 1.0
CG2 7:THR389 4.4 21.5 1.0
SG 7:CYS339 4.6 22.9 1.0
CA 7:CYS347 4.6 19.2 1.0
CG 7:PRO332 4.8 19.4 1.0
SG 7:CYS333 4.8 22.7 1.0
SG 7:CYS404 4.9 24.5 1.0

Iron binding site 3 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 3 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Fe501

b:33.7
occ:1.00
 FE3 7:SF4501 0.0 33.7 1.0
S4 7:SF4501 2.2 33.7 1.0
SG 7:CYS333 2.3 22.7 1.0
S1 7:SF4501 2.3 33.7 1.0
S2 7:SF4501 2.3 33.7 1.0
FE2 7:SF4501 2.7 33.7 1.0
FE1 7:SF4501 2.7 33.7 1.0
FE4 7:SF4501 2.7 33.7 1.0
CB 7:CYS333 3.2 22.7 1.0
CA 7:CYS333 3.5 22.7 1.0
N 7:CYS333 3.9 22.7 1.0
S3 7:SF4501 3.9 33.7 1.0
C 7:PRO332 4.4 19.4 1.0
CG 7:PRO332 4.5 19.4 1.0
O 7:PRO332 4.7 19.4 1.0
SG 7:CYS404 4.7 24.5 1.0
SG 7:CYS347 4.8 19.2 1.0
SG 7:CYS339 4.8 22.9 1.0
CD 7:PRO332 4.9 19.4 1.0
C 7:CYS333 4.9 22.7 1.0

Iron binding site 4 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 4 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Fe501

b:33.7
occ:1.00
 FE4 7:SF4501 0.0 33.7 1.0
SG 7:CYS339 2.3 22.9 1.0
S3 7:SF4501 2.3 33.7 1.0
S1 7:SF4501 2.3 33.7 1.0
S2 7:SF4501 2.3 33.7 1.0
FE2 7:SF4501 2.7 33.7 1.0
FE1 7:SF4501 2.7 33.7 1.0
FE3 7:SF4501 2.7 33.7 1.0
CB 7:CYS339 3.5 22.9 1.0
CD 7:PRO340 3.8 24.6 1.0
S4 7:SF4501 3.8 33.7 1.0
CA 7:CYS339 3.9 22.9 1.0
NE2 7:HIS303 4.4 20.6 1.0
N 7:PRO340 4.4 24.6 1.0
CB 7:CYS347 4.5 19.2 1.0
SG 7:CYS347 4.5 19.2 1.0
SG 7:CYS333 4.6 22.7 1.0
C 7:CYS339 4.6 22.9 1.0
SG 7:CYS404 4.7 24.5 1.0
SD 7:MET307 4.7 22.7 1.0
CG 7:PRO340 4.7 24.6 1.0
CE 7:MET307 4.9 22.7 1.0
N 7:GLN341 5.0 27.8 1.0

Iron binding site 5 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 5 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe201

b:81.2
occ:1.00
 FE1 P:FES201 0.0 81.2 1.0
S2 P:FES201 2.2 81.2 1.0
S1 P:FES201 2.2 81.2 1.0
SG P:CYS100 2.3 42.5 1.0
SG P:CYS65 2.3 47.2 1.0
FE2 P:FES201 2.7 81.2 1.0
CB P:CYS100 3.0 42.5 1.0
CG P:LYS103 3.4 38.9 1.0
CB P:CYS65 3.7 47.2 1.0
SG P:CYS68 4.2 48.8 1.0
CB P:CYS68 4.3 48.8 1.0
CA P:CYS100 4.3 42.5 1.0
N P:CYS100 4.4 42.5 1.0
CB P:LYS103 4.4 38.9 1.0
SG E:CYS105 4.4 66.5 1.0
CD P:LYS103 4.5 38.9 1.0
CA P:CYS68 4.6 48.8 1.0
N P:CYS65 4.6 47.2 1.0
CA P:CYS65 4.8 47.2 1.0
N P:LYS103 4.8 38.9 1.0
N P:CYS68 4.9 48.8 1.0
CD1 E:ILE108 4.9 58.2 1.0

Iron binding site 6 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 6 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe201

b:81.2
occ:1.00
 FE2 P:FES201 0.0 81.2 1.0
S1 P:FES201 2.2 81.2 1.0
S2 P:FES201 2.2 81.2 1.0
SG E:CYS105 2.3 66.5 1.0
SG P:CYS68 2.3 48.8 1.0
FE1 P:FES201 2.7 81.2 1.0
CB E:CYS105 2.9 66.5 1.0
CB P:CYS68 3.4 48.8 1.0
SG P:CYS65 4.1 47.2 1.0
CA E:CYS105 4.2 66.5 1.0
CA P:CYS68 4.3 48.8 1.0
N E:GLY107 4.3 61.2 1.0
CA E:GLY107 4.4 61.2 1.0
C E:CYS105 4.5 66.5 1.0
SG P:CYS100 4.6 42.5 1.0
CD P:LYS64 4.6 57.7 1.0
NZ P:LYS64 4.7 57.7 1.0
O E:CYS105 4.8 66.5 1.0

Iron binding site 7 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 7 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Fe201

b:61.5
occ:1.00
 FE1 T:FES201 0.0 61.5 1.0
S2 T:FES201 2.2 61.5 1.0
S1 T:FES201 2.2 61.5 1.0
SG T:CYS149 2.3 32.1 1.0
SG M:CYS26 2.3 28.9 1.0
FE2 T:FES201 2.7 61.5 1.0
CB T:CYS149 3.5 32.1 1.0
CB M:CYS26 3.8 28.9 1.0
SG T:CYS141 3.9 30.1 1.0
CA T:CYS149 4.2 32.1 1.0
N M:CYS26 4.4 28.9 1.0
C M:GLY25 4.5 25.9 1.0
CD T:PRO150 4.5 30.6 1.0
SG T:CYS139 4.7 29.8 1.0
CA M:CYS26 4.7 28.9 1.0
CA M:GLY25 4.7 25.9 1.0
O M:GLY25 4.9 25.9 1.0

Iron binding site 8 out of 8 in 8css

Go back to Iron Binding Sites List in 8css
Iron binding site 8 out of 8 in the Human Mitochondrial Small Subunit Assembly Intermediate (State D)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Human Mitochondrial Small Subunit Assembly Intermediate (State D) within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Fe201

b:61.5
occ:1.00
 FE2 T:FES201 0.0 61.5 1.0
S2 T:FES201 2.2 61.5 1.0
S1 T:FES201 2.2 61.5 1.0
SG T:CYS141 2.3 30.1 1.0
SG T:CYS139 2.3 29.8 1.0
CB T:CYS139 2.5 29.8 1.0
FE1 T:FES201 2.7 61.5 1.0
CB T:CYS141 3.4 30.1 1.0
CA T:CYS139 4.0 29.8 1.0
N T:CYS141 4.3 30.1 1.0
SG T:CYS149 4.3 32.1 1.0
CA T:CYS141 4.4 30.1 1.0
CA M:GLY25 4.6 25.9 1.0
C T:CYS139 4.6 29.8 1.0
CB T:CYS149 4.6 32.1 1.0
SG M:CYS26 4.7 28.9 1.0
N T:CYS139 4.8 29.8 1.0
N T:ILE140 4.9 26.4 1.0

Reference:

N.J.Harper, C.Burnside, S.Klinge. Principles of Mitoribosomal Small Subunit Assembly in Eukaryotes. Nature 2022.
ISSN: ESSN 1476-4687
PubMed: 36482135
DOI: 10.1038/S41586-022-05621-0
Page generated: Thu Aug 7 15:16:03 2025

Last articles

Na in 6HJA
Na in 6HJX
Na in 6HJ3
Na in 6HIP
Na in 6HHD
Na in 6HE3
Na in 6HE1
Na in 6HEM
Na in 6HDZ
Na in 6HDP
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy