Zinc in PDB 8c5y: Rpa Tetrameric Supercomplex From Pyrococcus Abyssi

The binding sites of Zinc atom in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi (pdb code 8c5y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi, PDB code: 8c5y:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Rpa Tetrameric Supercomplex From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn500 b:98.2 occ:1.00 ND1 A:HIS239 2.1 72.3 1.0 SG A:CYS218 2.3 68.6 1.0 SG A:CYS221 2.3 72.2 1.0 SG A:CYS236 2.3 70.2 1.0 CE1 A:HIS239 2.8 72.3 1.0 CB A:CYS218 3.2 68.6 1.0 CG A:HIS239 3.2 72.3 1.0 CB A:CYS236 3.6 70.2 1.0 CB A:CYS221 3.8 72.2 1.0 CB A:HIS239 3.8 72.3 1.0 NE2 A:HIS239 3.9 72.3 1.0 N A:CYS221 4.0 72.2 1.0 CD2 A:HIS239 4.2 72.3 1.0 CB A:GLU238 4.2 74.9 1.0 OE1 A:GLU220 4.3 72.3 1.0 N A:HIS239 4.3 72.3 1.0 OE1 A:GLU238 4.4 74.9 1.0 CA A:CYS221 4.5 72.2 1.0 CA A:CYS218 4.7 68.6 1.0 CB A:GLU220 4.7 72.3 1.0 CA A:HIS239 4.7 72.3 1.0 C A:GLU238 4.8 74.9 1.0 CG A:GLU238 4.9 74.9 1.0 CD A:GLU238 4.9 74.9 1.0 CA A:GLU238 4.9 74.9 1.0 CA A:CYS236 5.0 70.2 1.0

Zinc binding site 2 out of 4 in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Rpa Tetrameric Supercomplex From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn500 b:104.1 occ:1.00 ND1 D:HIS239 2.1 70.3 1.0 SG D:CYS221 2.3 70.3 1.0 SG D:CYS218 2.3 66.2 1.0 SG D:CYS236 2.3 66.4 1.0 CE1 D:HIS239 2.8 70.3 1.0 CB D:CYS218 3.0 66.2 1.0 OE2 D:GLU220 3.0 71.6 1.0 CG D:HIS239 3.3 70.3 1.0 CB D:CYS236 3.5 66.4 1.0 CB D:CYS221 3.8 70.3 1.0 CB D:HIS239 3.8 70.3 1.0 CD D:GLU220 4.0 71.6 1.0 NE2 D:HIS239 4.0 70.3 1.0 CG D:GLU238 4.2 65.7 1.0 CD2 D:HIS239 4.3 70.3 1.0 N D:CYS221 4.4 70.3 1.0 CG D:GLU220 4.4 71.6 1.0 OE2 D:GLU238 4.5 65.7 1.0 CA D:CYS218 4.5 66.2 1.0 CA D:CYS221 4.6 70.3 1.0 N D:HIS239 4.7 70.3 1.0 CD D:GLU238 4.8 65.7 1.0 CA D:HIS239 4.9 70.3 1.0 CG1 D:VAL242 4.9 69.9 1.0 CA D:CYS236 4.9 66.4 1.0

Zinc binding site 3 out of 4 in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Rpa Tetrameric Supercomplex From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn500 b:106.0 occ:1.00 CD2 G:HIS239 2.1 77.0 1.0 CG G:HIS239 2.1 77.0 1.0 NE2 G:HIS239 2.1 77.0 1.0 ND1 G:HIS239 2.2 77.0 1.0 CE1 G:HIS239 2.2 77.0 1.0 SG G:CYS218 2.3 69.5 1.0 SG G:CYS221 2.3 70.1 1.0 SG G:CYS236 2.3 73.5 1.0 CB G:CYS218 2.8 69.5 1.0 CB G:HIS239 3.2 77.0 1.0 CB G:CYS236 3.6 73.5 1.0 CB G:CYS221 3.9 70.1 1.0 N G:CYS221 4.2 70.1 1.0 CA G:CYS218 4.3 69.5 1.0 CA G:HIS239 4.5 77.0 1.0 OE1 G:GLU220 4.6 73.4 1.0 CA G:CYS221 4.7 70.1 1.0 N G:HIS239 4.7 77.0 1.0 CB G:GLU220 4.8 73.4 1.0 O G:CYS236 4.9 73.5 1.0 CA G:CYS236 4.9 73.5 1.0

Zinc binding site 4 out of 4 in the Rpa Tetrameric Supercomplex From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Rpa Tetrameric Supercomplex From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn500 b:99.5 occ:1.00 ND1 J:HIS239 2.1 75.7 1.0 SG J:CYS218 2.3 67.7 1.0 SG J:CYS221 2.3 74.2 1.0 SG J:CYS236 2.3 71.1 1.0 CE1 J:HIS239 2.7 75.7 1.0 CB J:CYS218 2.9 67.7 1.0 CG J:HIS239 3.4 75.7 1.0 CG J:GLU238 3.5 72.3 1.0 CB J:CYS236 3.7 71.1 1.0 OE2 J:GLU238 3.8 72.3 1.0 CB J:CYS221 3.9 74.2 1.0 NE2 J:HIS239 3.9 75.7 1.0 N J:CYS221 4.0 74.2 1.0 CB J:HIS239 4.0 75.7 1.0 CD J:GLU238 4.1 72.3 1.0 CD2 J:HIS239 4.3 75.7 1.0 CA J:CYS218 4.4 67.7 1.0 CA J:CYS221 4.5 74.2 1.0 N J:HIS239 4.5 75.7 1.0 CB J:GLU220 4.6 71.3 1.0 CB J:GLU238 4.8 72.3 1.0 N J:GLU220 4.9 71.3 1.0 CA J:HIS239 4.9 75.7 1.0 C J:GLU220 4.9 71.3 1.0 C J:GLU238 5.0 72.3 1.0 O J:CYS236 5.0 71.1 1.0 C J:CYS218 5.0 67.7 1.0 CA J:CYS236 5.0 71.1 1.0

C.Madru, M.Martinez-Carranza, S.Laurent, A.C.Alberti, M.Chevreuil, B.Raynal, A.Haouz, R.A.Le Meur, M.Delarue, G.Henneke, D.Flament, M.Krupovic, P.Legrand, L.Sauguet. Dna-Binding Mechanism and Evolution of Replication Protein A. Nat Commun V. 14 2326 2023.
ISSN: ESSN 2041-1723
PubMed: 37087464
DOI: 10.1038/S41467-023-38048-W