Iron in PDB 28jm: Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex

All present enzymatic activity of Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex:
3.6.4.12;

The structure of Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex also contains other interesting chemical elements:

Zinc

(Zn)

7 atoms

The binding sites of Iron atom in the Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex (pdb code 28jm). 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 and Xpc Initial Encounter Complex, PDB code: 28jm:
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 and Xpc Initial Encounter Complex


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 and Xpc Initial Encounter Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:82.8 occ:1.00 FE1 B:SF41000 0.0 82.8 1.0 SG B:CYS116 2.3 86.3 1.0 S2 B:SF41000 2.3 83.4 1.0 S4 B:SF41000 2.3 76.4 1.0 S3 B:SF41000 2.3 73.6 1.0 FE3 B:SF41000 2.7 82.9 1.0 FE4 B:SF41000 2.7 78.7 1.0 FE2 B:SF41000 2.7 92.9 1.0 CB B:CYS116 3.7 65.3 1.0 S1 B:SF41000 3.9 79.7 1.0 CA B:CYS116 4.1 61.8 1.0 N B:ILE117 4.2 66.0 1.0 CB B:HIS118 4.2 78.3 1.0 N B:HIS118 4.3 70.7 1.0 CG1 B:VAL121 4.6 82.3 1.0 SG B:CYS134 4.7 73.4 1.0 C B:CYS116 4.7 67.2 1.0 SG B:CYS190 4.7 64.7 1.0 SG B:CYS155 4.9 74.8 1.0 CB B:CYS134 4.9 75.6 1.0 CA B:HIS118 4.9 76.2 1.0

Iron binding site 2 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex


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 and Xpc Initial Encounter Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:92.9 occ:1.00 FE2 B:SF41000 0.0 92.9 1.0 SG B:CYS155 2.3 74.8 1.0 S3 B:SF41000 2.3 73.6 1.0 S1 B:SF41000 2.3 79.7 1.0 S4 B:SF41000 2.3 76.4 1.0 FE4 B:SF41000 2.7 78.7 1.0 FE3 B:SF41000 2.7 82.9 1.0 FE1 B:SF41000 2.7 82.8 1.0 CB B:CYS155 3.6 80.2 1.0 S2 B:SF41000 3.9 83.4 1.0 CB B:HIS118 4.6 78.3 1.0 CD2 B:PHE157 4.6 73.2 1.0 SG B:CYS190 4.8 64.7 1.0 CB B:CYS190 4.8 60.2 1.0 SG B:CYS134 4.8 73.4 1.0 CB B:PHE157 4.8 73.1 1.0 N B:TYR158 4.9 74.7 1.0 CB B:TYR158 4.9 75.4 1.0 CA B:CYS155 4.9 84.9 1.0 SG B:CYS116 4.9 86.3 1.0

Iron binding site 3 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex


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 and Xpc Initial Encounter Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:82.9 occ:1.00 FE3 B:SF41000 0.0 82.9 1.0 SG B:CYS134 2.3 73.4 1.0 S2 B:SF41000 2.3 83.4 1.0 S4 B:SF41000 2.3 76.4 1.0 S1 B:SF41000 2.3 79.7 1.0 FE1 B:SF41000 2.7 82.8 1.0 FE4 B:SF41000 2.7 78.7 1.0 FE2 B:SF41000 2.7 92.9 1.0 CB B:CYS134 3.3 75.6 1.0 S3 B:SF41000 3.9 73.6 1.0 CA B:CYS134 4.2 73.8 1.0 CG2 B:THR138 4.4 77.4 1.0 SG B:CYS116 4.6 86.3 1.0 O B:CYS134 4.7 80.5 1.0 C B:CYS134 4.7 75.2 1.0 SG B:CYS155 4.7 74.8 1.0 NE B:ARG112 4.8 63.2 1.0 SG B:CYS190 4.8 64.7 1.0 CE2 B:PHE193 4.8 65.2 1.0

Iron binding site 4 out of 4 in the Cryo-Em Structure of the Human Holo-Tfiih and Xpc Initial Encounter Complex


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 and Xpc Initial Encounter Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1000 b:78.7 occ:1.00 FE4 B:SF41000 0.0 78.7 1.0 SG B:CYS190 2.3 64.7 1.0 S2 B:SF41000 2.3 83.4 1.0 S3 B:SF41000 2.3 73.6 1.0 S1 B:SF41000 2.3 79.7 1.0 FE2 B:SF41000 2.7 92.9 1.0 FE1 B:SF41000 2.7 82.8 1.0 FE3 B:SF41000 2.7 82.9 1.0 CB B:CYS190 3.1 60.2 1.0 S4 B:SF41000 3.9 76.4 1.0 CA B:CYS190 4.2 59.2 1.0 CE2 B:PHE193 4.4 65.2 1.0 CD2 B:PHE193 4.5 62.8 1.0 SG B:CYS116 4.7 86.3 1.0 SG B:CYS155 4.7 74.8 1.0 SG B:CYS134 4.8 73.4 1.0 CB B:TYR192 4.9 53.2 1.0 C B:CYS190 5.0 58.1 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.