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Zinc in PDB 7ad8: Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit

Enzymatic activity of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit

All present enzymatic activity of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit:
3.6.4.12;

Other elements in 7ad8:

The structure of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit (pdb code 7ad8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit, PDB code: 7ad8:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 7ad8

Go back to Zinc Binding Sites List in 7ad8
Zinc binding site 1 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:192.0
occ:1.00
 SG E:CYS282 2.5 137.4 1.0
SG E:CYS268 2.5 112.9 1.0
CB E:CYS271 2.6 120.2 1.0
CG1 E:VAL270 3.1 114.0 1.0
N E:CYS271 3.1 120.2 1.0
CA E:CYS271 3.4 120.2 1.0
CB E:CYS282 3.7 137.4 1.0
CB E:CYS268 3.8 112.9 1.0
C E:VAL270 4.0 114.0 1.0
SG E:CYS271 4.0 120.2 1.0
OG1 E:THR284 4.1 134.9 1.0
CB E:VAL270 4.3 114.0 1.0
N E:VAL270 4.4 114.0 1.0
CA E:VAL270 4.4 114.0 1.0
C E:CYS271 4.7 120.2 1.0
O E:VAL270 4.9 114.0 1.0

Zinc binding site 2 out of 6 in 7ad8

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Zinc binding site 2 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn402

b:183.5
occ:1.00
 SG E:CYS255 2.5 133.5 1.0
SG E:CYS276 2.5 141.2 1.0
CB E:CYS255 2.6 133.5 1.0
CB E:CYS276 2.6 141.2 1.0
ND1 E:HIS258 2.7 146.2 1.0
CG E:HIS258 3.5 146.2 1.0
CE1 E:HIS258 3.6 146.2 1.0
CB E:HIS258 3.6 146.2 1.0
CA E:CYS276 3.7 141.2 1.0
N E:CYS276 3.8 141.2 1.0
CA E:CYS255 4.1 133.5 1.0
N E:HIS258 4.2 146.2 1.0
CD1 E:ILE262 4.4 124.9 1.0
CA E:HIS258 4.5 146.2 1.0
CD2 E:HIS258 4.6 146.2 1.0
NE2 E:HIS258 4.7 146.2 1.0
C E:PHE275 4.8 120.5 1.0
N E:CYS255 4.8 133.5 1.0
C E:CYS255 4.9 133.5 1.0

Zinc binding site 3 out of 6 in 7ad8

Go back to Zinc Binding Sites List in 7ad8
Zinc binding site 3 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:207.6
occ:1.00
 SG D:CYS308 2.5 145.6 1.0
SG D:CYS291 2.5 147.6 1.0
SG D:CYS294 2.5 158.4 1.0
SG D:CYS305 2.5 140.0 1.0
CB D:CYS308 3.3 145.6 1.0
CB D:CYS305 3.5 140.0 1.0
N D:CYS294 3.5 158.4 1.0
CB D:CYS294 3.6 158.4 1.0
CB D:GLN293 3.6 151.3 1.0
CB D:CYS291 4.0 147.6 1.0
CA D:CYS294 4.1 158.4 1.0
N D:CYS308 4.1 145.6 1.0
C D:GLN293 4.1 151.3 1.0
CA D:GLN293 4.3 151.3 1.0
CA D:CYS308 4.3 145.6 1.0
N D:GLN293 4.4 151.3 1.0
CG D:GLN293 4.5 151.3 1.0
C D:CYS294 4.8 158.4 1.0
CB D:ALA296 4.8 147.7 1.0
CA D:CYS305 4.9 140.0 1.0
C D:CYS308 5.0 145.6 1.0

Zinc binding site 4 out of 6 in 7ad8

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Zinc binding site 4 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn402

b:196.9
occ:1.00
 SG D:CYS345 2.5 135.3 1.0
SG D:CYS368 2.5 146.4 1.0
SG D:CYS348 2.5 126.6 1.0
SG D:CYS371 2.5 142.9 1.0
CB D:CYS368 2.9 146.4 1.0
CB D:CYS345 3.2 135.3 1.0
CB D:CYS371 3.4 142.9 1.0
N D:CYS368 3.4 146.4 1.0
CB D:CYS348 3.6 126.6 1.0
CA D:CYS368 3.7 146.4 1.0
N D:CYS348 3.9 126.6 1.0
N D:CYS371 4.3 142.9 1.0
C D:PHE367 4.3 139.6 1.0
CA D:CYS348 4.3 126.6 1.0
CA D:CYS371 4.4 142.9 1.0
C D:CYS368 4.6 146.4 1.0
CA D:PHE367 4.7 139.6 1.0
CA D:CYS345 4.7 135.3 1.0
N D:GLY347 4.8 125.8 1.0
C D:GLY347 4.9 125.8 1.0
N D:GLN349 4.9 122.5 1.0
O D:CYS368 4.9 146.4 1.0

Zinc binding site 5 out of 6 in 7ad8

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Zinc binding site 5 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn403

b:206.7
occ:1.00
 SG D:CYS363 2.5 160.9 1.0
SG D:CYS385 2.5 134.7 1.0
SG D:CYS360 2.5 160.7 1.0
SG D:CYS382 2.5 132.4 1.0
CB D:CYS382 3.5 132.4 1.0
CB D:CYS385 3.8 134.7 1.0
CB D:CYS360 3.8 160.7 1.0
CB D:VAL362 3.9 162.5 1.0
CB D:CYS363 3.9 160.9 1.0
N D:CYS363 3.9 160.9 1.0
N D:CYS385 4.0 134.7 1.0
CA D:CYS385 4.2 134.7 1.0
CG2 D:VAL362 4.3 162.5 1.0
CA D:CYS363 4.6 160.9 1.0
C D:GLY384 4.6 133.3 1.0
CA D:VAL362 4.7 162.5 1.0
CG1 D:VAL362 4.7 162.5 1.0
C D:VAL362 4.8 162.5 1.0
N D:VAL362 4.8 162.5 1.0
ND2 D:ASN365 4.9 151.5 1.0
CA D:GLY384 4.9 133.3 1.0
CA D:CYS382 4.9 132.4 1.0

Zinc binding site 6 out of 6 in 7ad8

Go back to Zinc Binding Sites List in 7ad8
Zinc binding site 6 out of 6 in the Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Core Tfiih-Xpa-Dna Complex with Modelled P62 Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn301

b:227.8
occ:1.00
 SG G:CYS108 2.5 200.7 1.0
SG G:CYS105 2.6 199.3 1.0
OE1 G:GLU107 2.6 199.9 1.0
N G:CYS108 2.8 200.7 1.0
CB G:GLU107 3.0 199.9 1.0
CB G:CYS108 3.4 200.7 1.0
C G:GLU107 3.5 199.9 1.0
CD G:GLU107 3.6 199.9 1.0
CA G:GLU107 3.6 199.9 1.0
CA G:CYS108 3.7 200.7 1.0
N G:GLU107 3.7 199.9 1.0
CG G:GLU107 3.7 199.9 1.0
N G:CYS126 4.0 195.9 1.0
CB G:CYS105 4.1 199.3 1.0
SG G:CYS126 4.2 195.9 1.0
CB G:CYS126 4.5 195.9 1.0
CA G:THR125 4.5 195.8 1.0
N G:GLY109 4.5 197.4 1.0
C G:CYS108 4.5 200.7 1.0
CG2 G:THR125 4.6 195.8 1.0
O G:GLU107 4.6 199.9 1.0
OE2 G:GLU107 4.7 199.9 1.0
C G:THR125 4.8 195.8 1.0
CA G:CYS126 4.8 195.9 1.0
C G:GLU106 4.8 196.8 1.0
N G:GLU106 4.9 196.8 1.0
O G:PRO124 4.9 193.3 1.0

Reference:

J.T.Barnett, J.Kuper, W.Koelmel, C.Kisker, N.M.Kad. The Tfiih Subunits P44/P62 Act As A Damage Sensor During Nucleotide Excision Repair. Nucleic Acids Res. V. 48 12689 2020.
ISSN: ESSN 1362-4962
PubMed: 33166411
DOI: 10.1093/NAR/GKAA973
Page generated: Tue Oct 29 16:36:48 2024

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