Atomistry » Iron » PDB 8e3u-8eqm » 8ebw
Atomistry »
  Iron »
    PDB 8e3u-8eqm »
      8ebw »

Iron in PDB 8ebw: Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2

Enzymatic activity of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2

All present enzymatic activity of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2:
3.6.4.12;

Other elements in 8ebw:

The structure of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 also contains other interesting chemical elements:

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

Iron Binding Sites:

The binding sites of Iron atom in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 (pdb code 8ebw). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2, PDB code: 8ebw:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 8ebw

Go back to Iron Binding Sites List in 8ebw
Iron binding site 1 out of 4 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:398.0
occ:1.00
FE1 B:SF41000 0.0 398.0 1.0
SG B:CYS116 2.3 401.1 1.0
S4 B:SF41000 2.3 398.0 1.0
S3 B:SF41000 2.3 398.0 1.0
S2 B:SF41000 2.3 398.0 1.0
FE4 B:SF41000 2.7 398.0 1.0
FE2 B:SF41000 2.7 398.0 1.0
FE3 B:SF41000 2.7 398.0 1.0
CB B:CYS116 2.8 401.1 1.0
CA B:CYS116 3.3 401.1 1.0
N B:ILE117 3.7 374.6 1.0
N B:HIS118 3.9 377.8 1.0
S1 B:SF41000 3.9 398.0 1.0
C B:CYS116 3.9 401.1 1.0
CB B:HIS118 4.0 377.8 1.0
SG B:CYS190 4.5 379.5 1.0
CA B:HIS118 4.6 377.8 1.0
N B:CYS116 4.6 401.1 1.0
SG B:CYS155 4.6 362.8 1.0
SG B:CYS134 4.7 390.3 1.0
CB B:CYS134 4.8 390.3 1.0
C B:ILE117 4.8 374.6 1.0
CA B:ILE117 4.8 374.6 1.0
CG2 B:VAL121 4.8 375.5 1.0
CB B:VAL121 4.9 375.5 1.0

Iron binding site 2 out of 4 in 8ebw

Go back to Iron Binding Sites List in 8ebw
Iron binding site 2 out of 4 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:398.0
occ:1.00
FE2 B:SF41000 0.0 398.0 1.0
SG B:CYS155 2.3 362.8 1.0
S1 B:SF41000 2.3 398.0 1.0
S4 B:SF41000 2.3 398.0 1.0
S3 B:SF41000 2.3 398.0 1.0
FE3 B:SF41000 2.7 398.0 1.0
FE1 B:SF41000 2.7 398.0 1.0
FE4 B:SF41000 2.7 398.0 1.0
CB B:CYS155 3.1 362.8 1.0
CB B:HIS118 3.7 377.8 1.0
S2 B:SF41000 3.9 398.0 1.0
CD1 B:PHE157 4.0 333.3 1.0
CG B:HIS118 4.3 377.8 1.0
CB B:PHE157 4.3 333.3 1.0
CA B:CYS155 4.4 362.8 1.0
CG B:PHE157 4.5 333.3 1.0
N B:HIS118 4.5 377.8 1.0
CD2 B:HIS118 4.6 377.8 1.0
SG B:CYS116 4.6 401.1 1.0
CA B:HIS118 4.6 377.8 1.0
SG B:CYS134 4.7 390.3 1.0
CE1 B:PHE157 4.8 333.3 1.0
CG2 B:THR138 5.0 398.7 1.0
SG B:CYS190 5.0 379.5 1.0

Iron binding site 3 out of 4 in 8ebw

Go back to Iron Binding Sites List in 8ebw
Iron binding site 3 out of 4 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:398.0
occ:1.00
FE3 B:SF41000 0.0 398.0 1.0
SG B:CYS134 2.3 390.3 1.0
S2 B:SF41000 2.3 398.0 1.0
S4 B:SF41000 2.3 398.0 1.0
S1 B:SF41000 2.3 398.0 1.0
FE2 B:SF41000 2.7 398.0 1.0
FE4 B:SF41000 2.7 398.0 1.0
FE1 B:SF41000 2.7 398.0 1.0
CB B:CYS134 3.1 390.3 1.0
CE1 B:PHE193 3.7 352.1 1.0
CZ B:PHE193 3.8 352.1 1.0
S3 B:SF41000 3.9 398.0 1.0
CA B:CYS134 4.0 390.3 1.0
SG B:CYS155 4.3 362.8 1.0
SG B:CYS190 4.6 379.5 1.0
CD B:ARG112 4.6 361.0 1.0
CG2 B:THR138 4.7 398.7 1.0
C B:CYS134 4.7 390.3 1.0
NH1 B:ARG112 4.7 361.0 1.0
O B:CYS134 4.8 390.3 1.0
OG1 B:THR138 4.8 398.7 1.0
SG B:CYS116 4.8 401.1 1.0
CB B:CYS155 4.9 362.8 1.0
CD1 B:PHE193 5.0 352.1 1.0
CB B:CYS116 5.0 401.1 1.0

Iron binding site 4 out of 4 in 8ebw

Go back to Iron Binding Sites List in 8ebw
Iron binding site 4 out of 4 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih COMPLEX2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1000

b:398.0
occ:1.00
FE4 B:SF41000 0.0 398.0 1.0
SG B:CYS190 2.3 379.5 1.0
S1 B:SF41000 2.3 398.0 1.0
S2 B:SF41000 2.3 398.0 1.0
S3 B:SF41000 2.3 398.0 1.0
FE3 B:SF41000 2.7 398.0 1.0
FE1 B:SF41000 2.7 398.0 1.0
FE2 B:SF41000 2.7 398.0 1.0
CB B:CYS190 3.1 379.5 1.0
CE1 B:PHE193 3.5 352.1 1.0
S4 B:SF41000 3.9 398.0 1.0
CD1 B:PHE193 4.2 352.1 1.0
CB B:PHE157 4.2 333.3 1.0
CA B:CYS190 4.3 379.5 1.0
CA B:CYS116 4.4 401.1 1.0
N B:ILE117 4.5 374.6 1.0
CZ B:PHE193 4.5 352.1 1.0
O B:LEU115 4.6 389.8 1.0
CB B:CYS116 4.7 401.1 1.0
SG B:CYS116 4.8 401.1 1.0
SG B:CYS134 4.8 390.3 1.0
CG B:PHE157 4.9 333.3 1.0
N B:TYR158 5.0 313.5 1.0
SG B:CYS155 5.0 362.8 1.0

Reference:

J.Kim, C.L.Li, X.Chen, Y.Cui, F.M.Golebiowski, H.Wang, F.Hanaoka, K.Sugasawa, W.Yang. Lesion Recognition By Xpc, Tfiih and Xpa in Dna Excision Repair Nature 2023.
ISSN: ESSN 1476-4687
Page generated: Sat Aug 10 01:08:42 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy