Calcium in PDB 8ebv: Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1

All present enzymatic activity of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1:
3.6.4.12;

The structure of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1 also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Zinc	(Zn)	5 atoms

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

Calcium binding site 1 out of 2 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1 within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca400 b:931.2 occ:1.00 OD1 J:ASN125 2.4 773.7 1.0 OG1 J:THR118 2.4 937.6 1.0 OD2 J:ASP116 2.5 897.5 1.0 OD1 J:ASP116 2.5 897.5 1.0 ND2 J:ASN125 2.7 773.7 1.0 CG J:ASP116 2.7 897.5 1.0 CG J:ASN125 2.9 773.7 1.0 OD1 J:ASP114 3.1 855.0 1.0 CG2 J:THR118 3.1 937.6 1.0 CB J:THR118 3.3 937.6 1.0 O J:LYS120 3.7 805.3 1.0 OG J:SER122 3.8 730.8 1.0 CG J:ASP114 4.1 855.0 1.0 CB J:ASP116 4.1 897.5 1.0 NZ J:LYS124 4.4 732.2 1.0 CB J:ASN125 4.4 773.7 1.0 N J:THR118 4.4 937.6 1.0 CA J:THR118 4.5 937.6 1.0 CE J:LYS124 4.5 732.2 1.0 CB J:SER122 4.7 730.8 1.0 N J:ASP116 4.7 897.5 1.0 N J:SER122 4.8 730.8 1.0 OD2 J:ASP114 4.8 855.0 1.0 CA J:ASP114 4.8 855.0 1.0 CA J:ASP116 4.9 897.5 1.0 C J:LYS120 4.9 805.3 1.0 CB J:ASP114 5.0 855.0 1.0

Calcium binding site 2 out of 2 in the Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Initial Dna-Lesion (Ap) Binding By Xpc and Tfiih Complex 1 within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca401 b:758.1 occ:1.00 OE1 J:GLU161 2.6 685.8 1.0 N J:SER158 2.7 680.4 1.0 OD2 J:ASP154 2.8 867.1 1.0 CD J:GLU161 2.8 685.8 1.0 CB J:SER158 3.1 680.4 1.0 OG J:SER158 3.1 680.4 1.0 OE2 J:GLU161 3.2 685.8 1.0 OD1 J:ASP154 3.2 867.1 1.0 O J:GLU156 3.2 801.0 1.0 C J:VAL157 3.3 695.8 1.0 CG J:ASP154 3.3 867.1 1.0 OD1 J:ASP152 3.4 819.0 1.0 CA J:VAL157 3.4 695.8 1.0 CA J:SER158 3.4 680.4 1.0 CG J:GLU161 3.6 685.8 1.0 OD2 J:ASP152 3.7 819.0 1.0 C J:GLU156 3.8 801.0 1.0 N J:VAL157 3.8 695.8 1.0 CG J:ASP152 3.9 819.0 1.0 OD1 J:ASP150 4.0 744.8 1.0 CB J:GLU161 4.2 685.8 1.0 O J:VAL157 4.3 695.8 1.0 CG J:GLU156 4.6 801.0 1.0 C J:SER158 4.7 680.4 1.0 CB J:VAL157 4.7 695.8 1.0 CB J:ASP154 4.8 867.1 1.0 CD J:LYS120 4.9 805.3 1.0 CA J:GLU156 4.9 801.0 1.0 CG J:ASP150 5.0 744.8 1.0

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