Fluorine in PDB 7jl1: Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer)

All present enzymatic activity of Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer):
2.3.2.27; 3.6.4.13;

The structure of Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Aluminium	(Al)	1 atom
Zinc	(Zn)	1 atom

The binding sites of Fluorine atom in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) (pdb code 7jl1). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer), PDB code: 7jl1:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer)


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 Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:46.7 occ:1.00 F1 A:ALF2002 0.0 46.7 1.0 MG A:MG2003 1.7 46.7 1.0 AL A:ALF2002 1.8 46.7 1.0 F4 A:ALF2002 2.5 46.7 1.0 F3 A:ALF2002 2.5 46.7 1.0 O1B A:ADP2001 2.7 46.7 1.0 PB A:ADP2001 3.3 46.7 1.0 O3B A:ADP2001 3.4 46.7 1.0 F2 A:ALF2002 3.6 46.7 1.0 O2B A:ADP2001 3.6 46.7 1.0 CD A:LYS270 4.2 46.7 1.0 OD1 A:ASP372 4.3 46.7 1.0 O A:ASP372 4.6 46.7 1.0 OD2 A:ASP372 4.7 46.7 1.0 CB A:LYS270 4.7 46.7 1.0 O3A A:ADP2001 4.8 46.7 1.0 CG A:ASP372 4.8 46.7 1.0 CE A:LYS270 4.8 46.7 1.0 O A:GLU702 5.0 46.7 1.0 OE2 A:GLU373 5.0 27.9 1.0

Fluorine binding site 2 out of 4 in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer)


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 Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:46.7 occ:1.00 F2 A:ALF2002 0.0 46.7 1.0 AL A:ALF2002 1.8 46.7 1.0 O2B A:ADP2001 2.1 46.7 1.0 F3 A:ALF2002 2.5 46.7 1.0 F4 A:ALF2002 2.6 46.7 1.0 NH2 A:ARG732 3.1 46.7 1.0 NH1 A:ARG730 3.3 46.7 1.0 PB A:ADP2001 3.3 46.7 1.0 F1 A:ALF2002 3.6 46.7 1.0 O1B A:ADP2001 3.7 46.7 1.0 CA A:GLY703 3.7 46.7 1.0 MG A:MG2003 4.0 46.7 1.0 N A:GLY703 4.0 46.7 1.0 CZ A:ARG732 4.1 46.7 1.0 O3B A:ADP2001 4.2 46.7 1.0 OE1 A:GLN726 4.2 46.7 1.0 O3A A:ADP2001 4.5 46.7 1.0 CG2 A:THR266 4.5 46.7 1.0 CB A:THR266 4.5 46.7 1.0 C A:GLU702 4.6 46.7 1.0 CZ A:ARG730 4.6 46.7 1.0 NH1 A:ARG732 4.8 46.7 1.0 CA A:THR266 4.9 46.7 1.0 NE A:ARG732 4.9 46.7 1.0 N A:GLY267 4.9 46.7 1.0 O A:GLU702 4.9 46.7 1.0

Fluorine binding site 3 out of 4 in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer)


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 Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:46.7 occ:1.00 F3 A:ALF2002 0.0 46.7 1.0 AL A:ALF2002 1.8 46.7 1.0 F2 A:ALF2002 2.5 46.7 1.0 F1 A:ALF2002 2.5 46.7 1.0 O2B A:ADP2001 3.3 46.7 1.0 F4 A:ALF2002 3.6 46.7 1.0 OE1 A:GLN726 3.8 46.7 1.0 O3B A:ADP2001 3.8 46.7 1.0 PB A:ADP2001 3.8 46.7 1.0 CB A:ALA410 3.9 46.7 1.0 MG A:MG2003 4.0 46.7 1.0 O1B A:ADP2001 4.2 46.7 1.0 NE2 A:GLN726 4.4 46.7 1.0 CE A:LYS270 4.5 46.7 1.0 NZ A:LYS270 4.5 46.7 1.0 CG2 A:THR266 4.5 46.7 1.0 CD A:GLN726 4.5 46.7 1.0 CD A:LYS270 4.6 46.7 1.0 N A:ALA410 4.7 46.7 1.0 CA A:ALA410 4.9 46.7 1.0

Fluorine binding site 4 out of 4 in the Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Cryo-Em Structure of Rig-I:Dsrna in Complex with Riplet Pryspry Domain (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:F2002 b:46.7 occ:1.00 F4 A:ALF2002 0.0 46.7 1.0 AL A:ALF2002 1.8 46.7 1.0 MG A:MG2003 1.8 46.7 1.0 O1B A:ADP2001 2.0 46.7 1.0 F1 A:ALF2002 2.5 46.7 1.0 F2 A:ALF2002 2.6 46.7 1.0 O2B A:ADP2001 2.6 46.7 1.0 PB A:ADP2001 2.8 46.7 1.0 CA A:GLY703 3.4 46.7 1.0 F3 A:ALF2002 3.6 46.7 1.0 O1A A:ADP2001 3.7 46.7 1.0 O3A A:ADP2001 3.8 46.7 1.0 O3B A:ADP2001 3.9 46.7 1.0 NH2 A:ARG732 3.9 46.7 1.0 PA A:ADP2001 4.2 46.7 1.0 N A:GLY703 4.3 46.7 1.0 O A:GLU702 4.3 46.7 1.0 C A:GLY703 4.4 46.7 1.0 O2A A:ADP2001 4.5 46.7 1.0 C A:GLU702 4.6 46.7 1.0 O A:GLY703 4.6 46.7 1.0 CZ A:ARG732 4.8 46.7 1.0 NH1 A:ARG732 4.8 46.7 1.0 NH1 A:ARG730 5.0 46.7 1.0

K.Kato, S.Ahmad, Z.Zhu, J.M.Young, X.Mu, S.Park, H.S.Malik, S.Hur. Structural Analysis of Rig-I-Like Receptors Reveals Ancient Rules of Engagement Between Diverse Rna Helicases and Trim Ubiquitin Ligases Mol.Cell 2020.
ISSN: ISSN 1097-2765