Ruthenium in PDB 8ffn: Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs

The binding sites of Ruthenium atom in the Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs (pdb code 8ffn). This binding sites where shown within 5.0 Angstroms radius around Ruthenium atom.
In total 3 binding sites of Ruthenium where determined in the Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs, PDB code: 8ffn:
Jump to Ruthenium binding site number: 1; 2; 3;

Ruthenium binding site 1 out of 3 in the Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ru801 b:110.5 occ:1.00 RU2 A:R2R801 0.0 110.5 1.0 O13 A:R2R801 1.8 104.7 1.0 O06 A:R2R801 1.8 108.3 1.0 N01 A:R2R801 2.0 103.9 1.0 N05 A:R2R801 2.0 104.3 1.0 N04 A:R2R801 2.0 102.6 1.0 N03 A:R2R801 2.0 104.0 1.0 RU1 A:R2R801 3.7 141.7 1.0 RU3 A:R2R801 3.7 144.6 1.0 O A:THR539 4.2 39.6 1.0 O C:THR539 4.2 39.6 1.0 O D:THR539 4.2 39.6 1.0 O B:THR539 4.2 39.6 1.0 N19 A:R2R801 4.2 101.3 1.0 N18 A:R2R801 4.2 103.2 1.0 N16 A:R2R801 4.2 101.1 1.0 N17 A:R2R801 4.2 107.5 1.0 N09 A:R2R801 4.2 107.4 1.0 N10 A:R2R801 4.2 105.9 1.0 N11 A:R2R801 4.2 106.5 1.0 N12 A:R2R801 4.2 107.6 1.0 OG1 A:THR539 4.8 22.2 1.0 OG1 C:THR539 4.8 22.2 1.0 OG1 D:THR539 4.8 22.2 1.0 OG1 B:THR539 4.8 22.2 1.0

Ruthenium binding site 2 out of 3 in the Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 2 of Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ru801 b:144.6 occ:1.00 RU3 A:R2R801 0.0 144.6 1.0 O06 A:R2R801 1.8 108.3 1.0 N10 A:R2R801 2.0 105.9 1.0 N09 A:R2R801 2.0 107.4 1.0 N12 A:R2R801 2.0 107.6 1.0 N11 A:R2R801 2.0 106.5 1.0 N08 A:R2R801 2.0 101.6 1.0 RU2 A:R2R801 3.7 110.5 1.0 OD1 D:ASP542 4.2 41.0 1.0 OD1 C:ASP542 4.2 41.0 1.0 OD1 B:ASP542 4.2 41.0 1.0 OD1 A:ASP542 4.2 41.0 1.0 N04 A:R2R801 4.2 102.6 1.0 N03 A:R2R801 4.2 104.0 1.0 N05 A:R2R801 4.2 104.3 1.0 N01 A:R2R801 4.2 103.9 1.0 O C:THR539 4.8 39.6 1.0 O D:THR539 4.8 39.6 1.0 O A:THR539 4.8 39.6 1.0 O B:THR539 4.8 39.6 1.0 CG D:ASP542 4.8 37.1 1.0 CG C:ASP542 4.8 37.1 1.0 CG A:ASP542 4.8 37.1 1.0 CG B:ASP542 4.8 37.1 1.0 OD2 D:ASP542 4.9 45.3 1.0 OD2 C:ASP542 4.9 45.3 1.0 OD2 A:ASP542 4.9 45.3 1.0 OD2 B:ASP542 4.9 45.3 1.0

Ruthenium binding site 3 out of 3 in the Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 3 of Rr-Bound Wildtype Rabbit TRPV5 in Nanodiscs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ru801 b:141.7 occ:1.00 RU1 A:R2R801 0.0 141.7 1.0 O13 A:R2R801 1.8 104.7 1.0 N17 A:R2R801 2.0 107.5 1.0 N19 A:R2R801 2.0 101.3 1.0 N18 A:R2R801 2.0 103.2 1.0 N16 A:R2R801 2.0 101.1 1.0 N15 A:R2R801 2.0 94.9 1.0 RU2 A:R2R801 3.7 110.5 1.0 N03 A:R2R801 4.2 104.0 1.0 N01 A:R2R801 4.2 103.9 1.0 N05 A:R2R801 4.2 104.3 1.0 N04 A:R2R801 4.2 102.6 1.0 OG1 A:THR539 4.9 22.2 1.0 OG1 B:THR539 4.9 22.2 1.0 OG1 C:THR539 4.9 22.2 1.0 OG1 D:THR539 4.9 22.2 1.0

R.A.Pumroy, J.J.De Jesus-Perez, A.D.Protopopova, J.A.Rocereta, E.C.Fluck, T.Fricke, B.H.Lee, T.Rohacs, A.Leffler, V.Moiseenkova-Bell. Molecular Details of Ruthenium Red Pore Block in Trpv Channels. Embo Rep. 2024.
ISSN: ESSN 1469-3178
PubMed: 38225355
DOI: 10.1038/S44319-023-00050-0