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Iron in PDB 28js: Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)

Enzymatic activity of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)

All present enzymatic activity of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map):
3.6.4.12;

Other elements in 28js:

The structure of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) also contains other interesting chemical elements:

Zinc (Zn) 5 atoms
Calcium (Ca) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) (pdb code 28js). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map), PDB code: 28js:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 28js

Go back to Iron Binding Sites List in 28js
Iron binding site 1 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:138.0
occ:1.00
 FE1 B:SF41000 0.0 138.0 1.0
S2 B:SF41000 2.3 122.8 1.0
S4 B:SF41000 2.3 100.4 1.0
S3 B:SF41000 2.3 97.5 1.0
SG B:CYS116 2.3 133.0 1.0
FE3 B:SF41000 2.7 112.3 1.0
FE4 B:SF41000 2.7 122.9 1.0
FE2 B:SF41000 2.8 103.8 1.0
CB B:CYS116 2.9 121.8 1.0
CA B:CYS116 3.7 113.9 1.0
S1 B:SF41000 3.9 106.9 1.0
O B:LEU115 3.9 111.9 1.0
N B:CYS116 4.5 108.7 1.0
CB B:CYS134 4.6 119.2 1.0
C B:LEU115 4.6 108.5 1.0
SG B:CYS134 4.7 132.4 1.0
SG B:CYS190 4.7 100.1 1.0
C B:CYS116 4.9 108.0 1.0
SG B:CYS155 4.9 137.5 1.0
CG1 B:VAL121 5.0 119.3 1.0
O B:ARG112 5.0 104.1 1.0

Iron binding site 2 out of 4 in 28js

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Iron binding site 2 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:103.8
occ:1.00
 FE2 B:SF41000 0.0 103.8 1.0
S1 B:SF41000 2.3 106.9 1.0
S3 B:SF41000 2.3 97.5 1.0
S4 B:SF41000 2.3 100.4 1.0
SG B:CYS155 2.3 137.5 1.0
FE4 B:SF41000 2.7 122.9 1.0
FE3 B:SF41000 2.7 112.3 1.0
FE1 B:SF41000 2.8 138.0 1.0
S2 B:SF41000 3.9 122.8 1.0
CB B:CYS155 3.9 137.4 1.0
CB B:HIS118 4.4 117.2 1.0
SG B:CYS190 4.8 100.1 1.0
SG B:CYS134 4.8 132.4 1.0
CD1 B:PHE157 4.9 125.3 1.0
SG B:CYS116 5.0 133.0 1.0
CB B:CYS116 5.0 121.8 1.0
CB B:CYS134 5.0 119.2 1.0

Iron binding site 3 out of 4 in 28js

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Iron binding site 3 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:112.3
occ:1.00
 FE3 B:SF41000 0.0 112.3 1.0
S2 B:SF41000 2.3 122.8 1.0
S4 B:SF41000 2.3 100.4 1.0
S1 B:SF41000 2.3 106.9 1.0
SG B:CYS134 2.3 132.4 1.0
FE1 B:SF41000 2.7 138.0 1.0
FE2 B:SF41000 2.7 103.8 1.0
FE4 B:SF41000 2.7 122.9 1.0
CB B:CYS134 2.9 119.2 1.0
S3 B:SF41000 3.9 97.5 1.0
CA B:CYS134 3.9 118.2 1.0
CZ B:PHE193 4.2 115.4 1.0
CE2 B:PHE193 4.2 113.4 1.0
C B:CYS134 4.6 118.1 1.0
SG B:CYS116 4.7 133.0 1.0
O B:CYS134 4.7 122.9 1.0
SG B:CYS155 4.8 137.5 1.0
CG2 B:THR138 4.8 127.6 1.0
SG B:CYS190 4.9 100.1 1.0
OG1 B:THR138 4.9 132.7 1.0

Iron binding site 4 out of 4 in 28js

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Iron binding site 4 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of the Human Holo-Tfiih-Xpc Complex Bound to Bulky Lesion-Mimic Dna (Composite Map) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:122.9
occ:1.00
 FE4 B:SF41000 0.0 122.9 1.0
S2 B:SF41000 2.3 122.8 1.0
S3 B:SF41000 2.3 97.5 1.0
S1 B:SF41000 2.3 106.9 1.0
SG B:CYS190 2.3 100.1 1.0
FE2 B:SF41000 2.7 103.8 1.0
FE1 B:SF41000 2.7 138.0 1.0
FE3 B:SF41000 2.7 112.3 1.0
CE2 B:PHE193 3.6 113.4 1.0
CB B:CYS190 3.7 106.3 1.0
S4 B:SF41000 3.9 100.4 1.0
O B:LEU115 4.3 111.9 1.0
CD2 B:PHE193 4.3 110.5 1.0
CZ B:PHE193 4.4 115.4 1.0
SG B:CYS155 4.7 137.5 1.0
CA B:CYS190 4.7 103.7 1.0
SG B:CYS116 4.7 133.0 1.0
SG B:CYS134 4.8 132.4 1.0
CB B:TYR192 4.9 100.5 1.0
CB B:CYS116 5.0 121.8 1.0

Reference:

N.De Martin Garrido, C.A.F.Haste, J.Feng, N.B.Cronin, B.J.Greber. Visualisation of Stepwise De-Repression of Tfiih in Global-Genome Nucleotide Excision Repair To Be Published.
Page generated: Sun Oct 4 09:33:00 2026

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