Calcium in PDB 8ebs: Initial Dna-Lesion (CY5) Binding By Xpc and Tfiih

All present enzymatic activity of Initial Dna-Lesion (CY5) Binding By Xpc and Tfiih:
3.6.4.12;

The structure of Initial Dna-Lesion (CY5) Binding By Xpc and Tfiih 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 (CY5) Binding By Xpc and Tfiih (pdb code 8ebs). 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 (CY5) Binding By Xpc and Tfiih, PDB code: 8ebs:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Initial Dna-Lesion (CY5) Binding By Xpc and Tfiih


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 (CY5) Binding By Xpc and Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca400 b:270.8 occ:1.00 OD1 J:ASN125 2.4 230.6 1.0 OD1 J:ASP114 2.4 266.4 1.0 OG1 J:THR118 2.4 267.5 1.0 OD1 J:ASP116 2.4 265.6 1.0 ND2 J:ASN125 2.6 230.6 1.0 CG J:ASN125 2.7 230.6 1.0 OD2 J:ASP116 2.8 265.6 1.0 CG J:ASP116 2.8 265.6 1.0 CG2 J:THR118 2.9 267.5 1.0 O J:LYS120 3.2 242.8 1.0 CG J:ASP114 3.2 266.4 1.0 CB J:THR118 3.2 267.5 1.0 OD2 J:ASP114 3.8 266.4 1.0 N J:THR118 4.0 267.5 1.0 CA J:ASP114 4.0 266.4 1.0 CB J:ASN125 4.0 230.6 1.0 CB J:ASP114 4.0 266.4 1.0 CB J:ASP116 4.1 265.6 1.0 OG J:SER122 4.2 229.6 1.0 CA J:THR118 4.2 267.5 1.0 C J:LYS120 4.4 242.8 1.0 N J:SER122 4.4 229.6 1.0 N J:ASP116 4.5 265.6 1.0 C J:ASP114 4.5 266.4 1.0 CA J:ASP116 4.7 265.6 1.0 N J:GLU117 4.7 267.1 1.0 C J:ASP116 4.7 265.6 1.0 CB J:SER122 4.8 229.6 1.0 NZ J:LYS124 4.9 215.7 1.0 CA J:ILE121 4.9 235.5 1.0

Calcium binding site 2 out of 2 in the Initial Dna-Lesion (CY5) Binding By Xpc and Tfiih


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 (CY5) Binding By Xpc and Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca401 b:265.7 occ:1.00 OD2 J:ASP154 2.5 271.4 1.0 OE1 J:GLU161 2.5 250.5 1.0 CD J:GLU161 2.6 250.5 1.0 OD2 J:ASP152 2.7 270.2 1.0 OG J:SER158 2.7 241.3 1.0 CB J:SER158 2.9 241.3 1.0 OD1 J:ASP152 2.9 270.2 1.0 OE2 J:GLU161 3.0 250.5 1.0 N J:SER158 3.1 241.3 1.0 CG J:ASP152 3.1 270.2 1.0 CG J:ASP154 3.2 271.4 1.0 OD1 J:ASP154 3.4 271.4 1.0 CG J:GLU161 3.4 250.5 1.0 CA J:SER158 3.6 241.3 1.0 O J:GLU156 3.8 259.9 1.0 C J:VAL157 3.9 233.3 1.0 OD1 J:ASP150 4.0 244.0 1.0 CA J:VAL157 4.1 233.3 1.0 CB J:GLU161 4.2 250.5 1.0 C J:GLU156 4.4 259.9 1.0 CB J:ASP154 4.5 271.4 1.0 CB J:ASP152 4.5 270.2 1.0 N J:VAL157 4.6 233.3 1.0 C J:SER158 4.8 241.3 1.0 O J:VAL157 4.9 233.3 1.0 N J:ASP152 4.9 270.2 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