Fluorine in PDB 6vz4: Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State

All present enzymatic activity of Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State:
3.6.4.12;

The structure of Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State also contains other interesting chemical elements:

Magnesium

(Mg)

10 atoms

The binding sites of Fluorine atom in the Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State (pdb code 6vz4). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State, PDB code: 6vz4:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State within 5.0Å range: probe atom residue distance (Å) B Occ K:F1503 b:1.0 occ:1.00 F1 K:BEF1503 0.0 1.0 1.0 BE K:BEF1503 1.7 1.0 1.0 F3 K:BEF1503 2.6 1.0 1.0 O1B K:ADP1502 2.6 1.0 1.0 F2 K:BEF1503 2.8 1.0 1.0 NH1 K:ARG903 2.9 0.2 1.0 N K:GLY498 3.0 0.2 1.0 O2B K:ADP1502 3.5 1.0 1.0 PB K:ADP1502 3.5 1.0 1.0 CA K:GLY498 3.7 0.2 1.0 C K:MET497 3.9 0.6 1.0 CA K:MET497 4.0 0.6 1.0 CZ K:ARG903 4.0 0.2 1.0 NH2 K:ARG900 4.1 0.8 1.0 O3A K:ADP1502 4.1 1.0 1.0 NH2 K:ARG903 4.3 0.2 1.0 CB K:MET497 4.3 0.6 1.0 CG K:MET497 4.6 0.6 1.0 C K:GLY498 4.8 0.2 1.0 N K:LEU499 4.9 1.0 1.0 O3B K:ADP1502 4.9 1.0 1.0 CZ K:ARG900 5.0 0.8 1.0

Fluorine binding site 2 out of 3 in the Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State within 5.0Å range: probe atom residue distance (Å) B Occ K:F1503 b:1.0 occ:1.00 F2 K:BEF1503 0.0 1.0 1.0 BE K:BEF1503 1.7 1.0 1.0 MG K:MG1501 2.3 0.8 1.0 O1B K:ADP1502 2.6 1.0 1.0 F3 K:BEF1503 2.7 1.0 1.0 F1 K:BEF1503 2.8 1.0 1.0 OE2 K:GLU598 2.9 0.2 1.0 PB K:ADP1502 3.8 1.0 1.0 CD K:GLU598 4.1 0.2 1.0 OD2 K:ASP597 4.1 0.8 1.0 OD1 K:ASP597 4.2 0.8 1.0 O2B K:ADP1502 4.3 1.0 1.0 NH1 K:ARG903 4.4 0.2 1.0 O3B K:ADP1502 4.5 1.0 1.0 CG K:ASP597 4.6 0.8 1.0 NH2 K:ARG903 4.7 0.2 1.0 OE1 K:GLU598 4.7 0.2 1.0

Fluorine binding site 3 out of 3 in the Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Cryo-Em Structure of STH1-ARP7-ARP9-RTT102 Bound to the Nucleosome in Adp Beryllium Fluoride State within 5.0Å range: probe atom residue distance (Å) B Occ K:F1503 b:1.0 occ:1.00 F3 K:BEF1503 0.0 1.0 1.0 BE K:BEF1503 1.7 1.0 1.0 F1 K:BEF1503 2.6 1.0 1.0 F2 K:BEF1503 2.7 1.0 1.0 O2B K:ADP1502 3.2 1.0 1.0 O1B K:ADP1502 3.4 1.0 1.0 CD K:LYS501 3.5 0.1 1.0 PB K:ADP1502 3.7 1.0 1.0 CE K:LYS501 4.0 0.1 1.0 NZ K:LYS501 4.0 0.1 1.0 MG K:MG1501 4.0 0.8 1.0 CG K:LYS501 4.1 0.1 1.0 CB K:LYS501 4.2 0.1 1.0 N K:GLY498 4.5 0.2 1.0 OE2 K:GLU598 4.5 0.2 1.0 O3B K:ADP1502 4.6 1.0 1.0 CA K:MET497 4.9 0.6 1.0 OD1 K:ASP597 4.9 0.8 1.0 N K:GLY627 5.0 0.2 1.0 O3A K:ADP1502 5.0 1.0 1.0

R.W.Baker, J.M.Reimer, P.J.Carman, B.Turegun, T.Arakawa, R.Dominguez, A.E.Leschziner. Structural Insights Into Assembly and Function of the Rsc Chromatin Remodeling Complex Nat.Struct.Mol.Biol. 2020.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-020-00528-8