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

Other elements in 8u3a:

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

Bromine (Br) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium 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 Sodium atom.
In total only one binding site of Sodium was determined in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer), PDB code: 8u3a:

Sodium binding site 1 out of 1 in 8u3a

Go back to Sodium Binding Sites List in 8u3a
Sodium binding site 1 out of 1 in the TRPV1 in Nanodisc Bound with Pi-BR4 Bound in Conformation 1 (Monomer)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na 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:Na803

b:56.4
occ:1.00
O A:GLY643 2.5 36.0 1.0
O D:GLY643 2.5 36.0 1.0
H1 D:HOH803 2.6 0.0 1.0
O A:HOH907 2.8 39.4 1.0
O D:HOH803 2.8 33.5 1.0
HA3 A:GLY643 3.2 36.0 1.0
HA3 D:GLY643 3.2 36.0 1.0
H1 A:HOH907 3.3 0.0 1.0
H2 A:HOH907 3.3 0.0 1.0
C A:GLY643 3.5 36.0 1.0
C D:GLY643 3.5 36.0 1.0
H2 D:HOH803 3.7 0.0 1.0
CA A:GLY643 3.8 36.0 1.0
CA D:GLY643 3.8 36.0 1.0
HA2 D:GLY643 4.1 36.0 1.0
HA2 A:GLY643 4.1 36.0 1.0
HG2 D:MET644 4.3 34.5 1.0
HG2 A:MET644 4.4 34.5 1.0
HA A:MET644 4.6 34.5 1.0
HA D:MET644 4.6 34.5 1.0
N A:MET644 4.6 34.5 1.0
N D:MET644 4.7 34.5 1.0
O A:ILE642 4.7 37.2 1.0
O D:ILE642 4.7 37.2 1.0
SD D:MET644 4.8 34.5 1.0

Reference:

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
Page generated: Wed Oct 9 13:48:48 2024

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