Bromine in PDB 8u3a: TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer)

The structure of TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer) also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Bromine atom in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer) (pdb code 8u3a). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer), PDB code: 8u3a:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:Br801 b:58.8 occ:1.00 BR10 A:VPN801 0.0 58.8 1.0 C09 A:VPN801 1.9 58.8 1.0 H091 A:VPN801 2.5 58.8 1.0 H062 A:VPN801 2.8 58.8 1.0 H132 A:VPN801 2.8 58.8 1.0 C11 A:VPN801 2.8 58.8 1.0 H082 A:VPN801 2.8 58.8 1.0 C08 A:VPN801 2.9 58.8 1.0 HD22 D:LEU669 3.0 44.2 1.0 HD13 D:LEU669 3.0 44.2 1.0 BR12 A:VPN801 3.2 58.8 1.0 C13 A:VPN801 3.2 58.8 1.0 HB1 D:ALA665 3.3 41.3 1.0 HZ D:PHE591 3.4 41.6 1.0 H071 A:VPN801 3.4 58.8 1.0 C07 A:VPN801 3.5 58.8 1.0 C06 A:VPN801 3.5 58.8 1.0 H141 A:VPN801 3.6 58.8 1.0 HD21 D:LEU669 3.6 44.2 1.0 CD2 D:LEU669 3.7 44.2 1.0 HD11 D:LEU669 3.7 44.2 1.0 CD1 D:LEU669 3.8 44.2 1.0 H111 A:VPN801 3.8 58.8 1.0 H081 A:VPN801 3.8 58.8 1.0 H061 A:VPN801 3.9 58.8 1.0 H042 A:VPN801 4.0 58.8 1.0 C14 A:VPN801 4.0 58.8 1.0 HG21 A:THR550 4.1 47.2 1.0 H131 A:VPN801 4.2 58.8 1.0 CZ D:PHE591 4.3 41.6 1.0 CG D:LEU669 4.3 44.2 1.0 CB D:ALA665 4.4 41.3 1.0 HD23 D:LEU669 4.5 44.2 1.0 H072 A:VPN801 4.5 58.8 1.0 HE2 D:PHE591 4.5 41.6 1.0 HD12 D:LEU669 4.5 44.2 1.0 HG1 A:THR550 4.6 47.2 1.0 H142 A:VPN801 4.7 58.8 1.0 HB2 D:ALA665 4.7 41.3 1.0 HB2 D:LEU669 4.7 44.2 1.0 C05 A:VPN801 4.8 58.8 1.0 C04 A:VPN801 4.9 58.8 1.0 CE2 D:PHE591 4.9 41.6 1.0 H151 A:VPN801 4.9 58.8 1.0 HB3 D:ALA665 4.9 41.3 1.0

Bromine binding site 2 out of 2 in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer) within 5.0Å range: probe atom residue distance (Å) B Occ A:Br801 b:58.8 occ:1.00 BR12 A:VPN801 0.0 58.8 1.0 C11 A:VPN801 1.9 58.8 1.0 H111 A:VPN801 2.5 58.8 1.0 H141 A:VPN801 2.6 58.8 1.0 H142 A:VPN801 2.7 58.8 1.0 C09 A:VPN801 2.8 58.8 1.0 C14 A:VPN801 2.9 58.8 1.0 C13 A:VPN801 2.9 58.8 1.0 H091 A:VPN801 2.9 58.8 1.0 BR10 A:VPN801 3.2 58.8 1.0 H132 A:VPN801 3.5 58.8 1.0 H131 A:VPN801 3.7 58.8 1.0 HD11 D:LEU669 4.0 44.2 1.0 C08 A:VPN801 4.2 58.8 1.0 C15 A:VPN801 4.4 58.8 1.0 H081 A:VPN801 4.4 58.8 1.0 HD13 D:LEU669 4.4 44.2 1.0 HD21 A:LEU515 4.4 55.1 1.0 H082 A:VPN801 4.6 58.8 1.0 HD21 D:LEU669 4.6 44.2 1.0 H172 A:VPN801 4.6 58.8 1.0 HD22 A:LEU515 4.6 55.1 1.0 CD1 D:LEU669 4.7 44.2 1.0 H152 A:VPN801 4.8 58.8 1.0 HD13 A:ILE573 4.9 50.9 1.0 H151 A:VPN801 4.9 58.8 1.0

W.R.Arnold, M.Mancino, F.R.Moss Iii, A.Frost, D.Julius, Y.Cheng. Structural Basis of TRPV1 Modulation By Endogenous Bioactive Lipids Nat.Struct.Mol.Biol. 2024.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-024-01299-2