Iron in PDB 28ke: Cryo-Em Structure of the Human Holo-Tfiih-Xpc-Xpa Complex Bound to Bulky Lesion-Mimic Dna

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

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

Zinc

(Zn)

6 atoms

The binding sites of Iron atom in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc-Xpa Complex Bound to Bulky Lesion-Mimic Dna (pdb code 28ke). 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-Xpa Complex Bound to Bulky Lesion-Mimic Dna, PDB code: 28ke:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih-Xpc-Xpa Complex Bound to Bulky Lesion-Mimic Dna


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-Xpa Complex Bound to Bulky Lesion-Mimic Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:256.0 occ:1.00 FE1 B:SF41000 0.0 256.0 1.0 SG B:CYS116 2.3 222.5 1.0 S2 B:SF41000 2.3 256.0 1.0 S3 B:SF41000 2.3 256.0 1.0 S4 B:SF41000 2.3 256.0 1.0 FE3 B:SF41000 2.7 256.0 1.0 FE4 B:SF41000 2.7 256.0 1.0 FE2 B:SF41000 2.7 256.0 1.0 CB B:CYS116 3.7 222.5 1.0 S1 B:SF41000 3.9 256.0 1.0 CA B:CYS116 4.2 222.5 1.0 CB B:HIS118 4.2 218.0 1.0 N B:ILE117 4.3 219.8 1.0 N B:HIS118 4.4 218.0 1.0 SG B:CYS134 4.6 213.5 1.0 CG1 B:VAL121 4.7 218.1 1.0 SG B:CYS190 4.7 214.7 1.0 SG B:CYS155 4.8 229.5 1.0 C B:CYS116 4.8 222.5 1.0 CB B:CYS134 4.9 213.5 1.0 CA B:HIS118 5.0 218.0 1.0

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


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-Xpa Complex Bound to Bulky Lesion-Mimic Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:256.0 occ:1.00 FE2 B:SF41000 0.0 256.0 1.0 SG B:CYS155 2.3 229.5 1.0 S1 B:SF41000 2.3 256.0 1.0 S3 B:SF41000 2.3 256.0 1.0 S4 B:SF41000 2.3 256.0 1.0 FE4 B:SF41000 2.7 256.0 1.0 FE1 B:SF41000 2.7 256.0 1.0 FE3 B:SF41000 2.7 256.0 1.0 CB B:CYS155 3.4 229.5 1.0 S2 B:SF41000 3.9 256.0 1.0 CB B:TYR158 4.6 216.2 1.0 CB B:HIS118 4.7 218.0 1.0 SG B:CYS190 4.7 214.7 1.0 N B:TYR158 4.8 216.2 1.0 CG2 B:THR138 4.8 211.4 1.0 CA B:CYS155 4.8 229.5 1.0 CB B:CYS190 4.8 214.7 1.0 CD2 B:LEU137 4.8 216.0 1.0 CD2 B:PHE157 4.8 217.4 1.0 SG B:CYS116 4.9 222.5 1.0 SG B:CYS134 4.9 213.5 1.0 CB B:PHE157 4.9 217.4 1.0

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


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-Xpa Complex Bound to Bulky Lesion-Mimic Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:256.0 occ:1.00 FE3 B:SF41000 0.0 256.0 1.0 SG B:CYS134 2.3 213.5 1.0 S2 B:SF41000 2.3 256.0 1.0 S4 B:SF41000 2.3 256.0 1.0 S1 B:SF41000 2.3 256.0 1.0 FE1 B:SF41000 2.7 256.0 1.0 FE4 B:SF41000 2.7 256.0 1.0 FE2 B:SF41000 2.7 256.0 1.0 CB B:CYS134 3.3 213.5 1.0 S3 B:SF41000 3.9 256.0 1.0 CG2 B:THR138 4.1 211.4 1.0 CA B:CYS134 4.1 213.5 1.0 O B:CYS134 4.5 213.5 1.0 CE2 B:PHE193 4.6 200.5 1.0 C B:CYS134 4.6 213.5 1.0 SG B:CYS116 4.7 222.5 1.0 SG B:CYS190 4.8 214.7 1.0 SG B:CYS155 4.8 229.5 1.0

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


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-Xpa Complex Bound to Bulky Lesion-Mimic Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:256.0 occ:1.00 FE4 B:SF41000 0.0 256.0 1.0 SG B:CYS190 2.3 214.7 1.0 S3 B:SF41000 2.3 256.0 1.0 S2 B:SF41000 2.3 256.0 1.0 S1 B:SF41000 2.3 256.0 1.0 FE2 B:SF41000 2.7 256.0 1.0 FE1 B:SF41000 2.7 256.0 1.0 FE3 B:SF41000 2.7 256.0 1.0 CB B:CYS190 3.2 214.7 1.0 S4 B:SF41000 3.9 256.0 1.0 CA B:CYS190 4.2 214.7 1.0 CE2 B:PHE193 4.2 200.5 1.0 CD2 B:PHE193 4.3 200.5 1.0 SG B:CYS155 4.7 229.5 1.0 SG B:CYS116 4.7 222.5 1.0 SG B:CYS134 4.7 213.5 1.0 CB B:TYR192 4.8 199.6 1.0 C B:CYS190 5.0 214.7 1.0

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.