Chlorine in PDB 8gfa: Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791

Other elements in 8gfa:

The structure of Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 (pdb code 8gfa). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791, PDB code: 8gfa:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 8gfa

Go back to Chlorine Binding Sites List in 8gfa
Chlorine binding site 1 out of 4 in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1202

b:6.1
occ:1.00
CL17 A:ZEI1202 0.0 6.1 1.0
C16 A:ZEI1202 1.7 6.1 1.0
HD1 A:PHE543 2.6 34.4 1.0
C15 A:ZEI1202 2.7 6.1 1.0
C18 A:ZEI1202 2.7 6.1 1.0
H10 A:ZEI1202 2.8 6.1 1.0
H3 A:ZEI1202 2.8 6.1 1.0
HE1 B:PHE591 3.3 20.5 1.0
H212 B:POV1201 3.3 18.1 1.0
HD12 B:LEU663 3.3 24.1 1.0
CD1 A:PHE543 3.4 34.4 1.0
H21B B:POV1201 3.5 18.1 1.0
HE1 A:PHE543 3.5 34.4 1.0
HB3 A:ALA546 3.8 31.0 1.0
CE1 A:PHE543 3.9 34.4 1.0
HB3 B:ALA666 3.9 21.2 1.0
C212 B:POV1201 3.9 18.1 1.0
HB1 B:ALA666 3.9 21.2 1.0
C19 A:ZEI1202 4.0 6.1 1.0
C14 A:ZEI1202 4.0 6.1 1.0
H214 B:POV1201 4.0 18.1 1.0
HB1 A:ALA546 4.0 31.0 1.0
HD13 B:LEU663 4.1 24.1 1.0
CE1 B:PHE591 4.1 20.5 1.0
HA B:LEU663 4.1 24.1 1.0
CD1 B:LEU663 4.1 24.1 1.0
HA A:PHE543 4.1 34.4 1.0
HB2 B:ALA666 4.1 21.2 1.0
CB B:ALA666 4.2 21.2 1.0
HG A:LEU547 4.3 32.5 1.0
HZ B:PHE591 4.3 20.5 1.0
HD11 B:LEU663 4.3 24.1 1.0
CB A:ALA546 4.4 31.0 1.0
H21D B:POV1201 4.4 18.1 1.0
C13 A:ZEI1202 4.5 6.1 1.0
HG22 B:ILE662 4.5 26.2 1.0
C214 B:POV1201 4.5 18.1 1.0
HB3 A:PHE543 4.6 34.4 1.0
CG A:PHE543 4.6 34.4 1.0
CZ B:PHE591 4.6 20.5 1.0
C213 B:POV1201 4.6 18.1 1.0
H21C B:POV1201 4.6 18.1 1.0
H4 A:ZEI1202 4.7 6.1 1.0
H9 A:ZEI1202 4.7 6.1 1.0
HB2 A:ALA546 4.9 31.0 1.0
CB A:PHE543 4.9 34.4 1.0
CA A:PHE543 4.9 34.4 1.0
H21D A:POV1201 5.0 18.4 1.0
CA B:LEU663 5.0 24.1 1.0

Chlorine binding site 2 out of 4 in 8gfa

Go back to Chlorine Binding Sites List in 8gfa
Chlorine binding site 2 out of 4 in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl1204

b:4.2
occ:1.00
CL17 B:ZEI1204 0.0 4.2 1.0
C16 B:ZEI1204 1.7 4.2 1.0
HD1 B:PHE543 2.6 34.1 1.0
C15 B:ZEI1204 2.7 4.2 1.0
C18 B:ZEI1204 2.7 4.2 1.0
H10 B:ZEI1204 2.8 4.2 1.0
H3 B:ZEI1204 2.8 4.2 1.0
HE1 C:PHE591 3.3 20.7 1.0
HD12 C:LEU663 3.3 24.4 1.0
H212 B:POV1202 3.3 17.9 1.0
CD1 B:PHE543 3.5 34.1 1.0
H21B B:POV1202 3.5 17.9 1.0
HE1 B:PHE543 3.5 34.1 1.0
HB3 B:ALA546 3.9 30.8 1.0
C212 B:POV1202 3.9 17.9 1.0
CE1 B:PHE543 3.9 34.1 1.0
H214 B:POV1202 3.9 17.9 1.0
HB3 C:ALA666 4.0 21.3 1.0
C19 B:ZEI1204 4.0 4.2 1.0
C14 B:ZEI1204 4.0 4.2 1.0
HB1 C:ALA666 4.0 21.3 1.0
HD13 C:LEU663 4.0 24.4 1.0
CD1 C:LEU663 4.0 24.4 1.0
CE1 C:PHE591 4.1 20.7 1.0
HB1 B:ALA546 4.1 30.8 1.0
HA C:LEU663 4.1 24.4 1.0
HA B:PHE543 4.2 34.1 1.0
HB2 C:ALA666 4.2 21.3 1.0
CB C:ALA666 4.2 21.3 1.0
HD11 C:LEU663 4.3 24.4 1.0
HZ C:PHE591 4.3 20.7 1.0
HG B:LEU547 4.3 32.3 1.0
H21D B:POV1202 4.4 17.9 1.0
CB B:ALA546 4.4 30.8 1.0
C13 B:ZEI1204 4.5 4.2 1.0
C214 B:POV1202 4.5 17.9 1.0
HG22 C:ILE662 4.6 26.5 1.0
HB3 B:PHE543 4.6 34.1 1.0
CZ C:PHE591 4.6 20.7 1.0
C213 B:POV1202 4.6 17.9 1.0
H21C B:POV1202 4.6 17.9 1.0
CG B:PHE543 4.6 34.1 1.0
H4 B:ZEI1204 4.7 4.2 1.0
H9 B:ZEI1204 4.7 4.2 1.0
HB2 B:ALA546 4.9 30.8 1.0
CB B:PHE543 4.9 34.1 1.0
CA B:PHE543 4.9 34.1 1.0
H21D B:POV1203 5.0 17.9 1.0
CD1 C:PHE591 5.0 20.7 1.0
HD1 C:PHE591 5.0 20.7 1.0

Chlorine binding site 3 out of 4 in 8gfa

Go back to Chlorine Binding Sites List in 8gfa
Chlorine binding site 3 out of 4 in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl1202

b:5.8
occ:1.00
CL17 C:ZEI1202 0.0 5.8 1.0
C16 C:ZEI1202 1.7 5.8 1.0
HD1 C:PHE543 2.6 34.5 1.0
C15 C:ZEI1202 2.7 5.8 1.0
C18 C:ZEI1202 2.7 5.8 1.0
H10 C:ZEI1202 2.8 5.8 1.0
H3 C:ZEI1202 2.8 5.8 1.0
HE1 D:PHE591 3.3 20.6 1.0
H212 D:POV1201 3.3 17.6 1.0
HD12 D:LEU663 3.3 24.4 1.0
CD1 C:PHE543 3.5 34.5 1.0
H21B D:POV1201 3.5 17.6 1.0
HE1 C:PHE543 3.5 34.5 1.0
HB3 C:ALA546 3.9 31.0 1.0
C212 D:POV1201 3.9 17.6 1.0
CE1 C:PHE543 3.9 34.5 1.0
HB3 D:ALA666 3.9 21.3 1.0
HB1 D:ALA666 3.9 21.3 1.0
H214 D:POV1201 3.9 17.6 1.0
C19 C:ZEI1202 4.0 5.8 1.0
C14 C:ZEI1202 4.0 5.8 1.0
HD13 D:LEU663 4.0 24.4 1.0
HB1 C:ALA546 4.1 31.0 1.0
CD1 D:LEU663 4.1 24.4 1.0
HA D:LEU663 4.1 24.4 1.0
CE1 D:PHE591 4.1 20.6 1.0
HA C:PHE543 4.1 34.5 1.0
HB2 D:ALA666 4.1 21.3 1.0
CB D:ALA666 4.2 21.3 1.0
HG C:LEU547 4.3 32.6 1.0
HZ D:PHE591 4.3 20.6 1.0
HD11 D:LEU663 4.3 24.4 1.0
H21D D:POV1201 4.4 17.6 1.0
CB C:ALA546 4.4 31.0 1.0
C13 C:ZEI1202 4.5 5.8 1.0
C214 D:POV1201 4.5 17.6 1.0
HG22 D:ILE662 4.5 26.5 1.0
HB3 C:PHE543 4.6 34.5 1.0
CG C:PHE543 4.6 34.5 1.0
C213 D:POV1201 4.6 17.6 1.0
CZ D:PHE591 4.6 20.6 1.0
H21C D:POV1201 4.6 17.6 1.0
H4 C:ZEI1202 4.7 5.8 1.0
H9 C:ZEI1202 4.7 5.8 1.0
HB2 C:ALA546 4.9 31.0 1.0
CB C:PHE543 4.9 34.5 1.0
CA C:PHE543 4.9 34.5 1.0
H21D C:POV1201 5.0 17.6 1.0

Chlorine binding site 4 out of 4 in 8gfa

Go back to Chlorine Binding Sites List in 8gfa
Chlorine binding site 4 out of 4 in the Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Cryo-Em Structure of Human TRPV1 in Complex with the Analgesic Drug Sb-366791 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl1203

b:6.0
occ:1.00
CL17 D:ZEI1203 0.0 6.0 1.0
C16 D:ZEI1203 1.7 6.0 1.0
HD1 D:PHE543 2.6 34.6 1.0
C18 D:ZEI1203 2.7 6.0 1.0
C15 D:ZEI1203 2.7 6.0 1.0
H10 D:ZEI1203 2.8 6.0 1.0
H3 D:ZEI1203 2.8 6.0 1.0
HE1 A:PHE591 3.2 20.8 1.0
HD12 A:LEU663 3.2 24.4 1.0
H212 A:POV1211 3.3 19.0 1.0
CD1 D:PHE543 3.5 34.6 1.0
H21B A:POV1211 3.5 19.0 1.0
HE1 D:PHE543 3.5 34.6 1.0
HB3 A:ALA666 3.9 21.5 1.0
HB3 D:ALA546 3.9 31.1 1.0
C212 A:POV1211 3.9 19.0 1.0
HB1 A:ALA666 3.9 21.5 1.0
CE1 D:PHE543 3.9 34.6 1.0
H214 A:POV1211 3.9 19.0 1.0
HD13 A:LEU663 4.0 24.4 1.0
CD1 A:LEU663 4.0 24.4 1.0
C19 D:ZEI1203 4.0 6.0 1.0
C14 D:ZEI1203 4.0 6.0 1.0
HA A:LEU663 4.0 24.4 1.0
CE1 A:PHE591 4.0 20.8 1.0
HB1 D:ALA546 4.1 31.1 1.0
HB2 A:ALA666 4.1 21.5 1.0
CB A:ALA666 4.1 21.5 1.0
HA D:PHE543 4.2 34.6 1.0
HD11 A:LEU663 4.2 24.4 1.0
HZ A:PHE591 4.3 20.8 1.0
HG D:LEU547 4.3 32.6 1.0
H21D A:POV1211 4.4 19.0 1.0
CB D:ALA546 4.4 31.1 1.0
HG22 A:ILE662 4.5 26.4 1.0
C13 D:ZEI1203 4.5 6.0 1.0
C214 A:POV1211 4.5 19.0 1.0
CZ A:PHE591 4.6 20.8 1.0
HB3 D:PHE543 4.6 34.6 1.0
C213 A:POV1211 4.6 19.0 1.0
H21C A:POV1211 4.6 19.0 1.0
CG D:PHE543 4.6 34.6 1.0
H4 D:ZEI1203 4.7 6.0 1.0
H9 D:ZEI1203 4.7 6.0 1.0
HB2 D:ALA546 4.9 31.1 1.0
CA A:LEU663 4.9 24.4 1.0
CB D:PHE543 4.9 34.6 1.0
HD1 A:PHE591 4.9 20.8 1.0
CD1 A:PHE591 4.9 20.8 1.0
CA D:PHE543 4.9 34.6 1.0
H21D D:POV1202 4.9 19.3 1.0

Reference:

A.Neuberger, M.Oda, Y.A.Nikolaev, K.D.Nadezhdin, E.O.Gracheva, S.N.Bagriantsev, A.I.Sobolevsky. Human TRPV1 Structure and Inhibition By the Analgesic Sb-366791. Nat Commun V. 14 2451 2023.
ISSN: ESSN 2041-1723
PubMed: 37117175
DOI: 10.1038/S41467-023-38162-9
Page generated: Wed Jul 26 16:48:45 2023

Last articles

Cl in 3TJQ
Cl in 3TJY
Cl in 3TK1
Cl in 3TJE
Cl in 3TJ2
Cl in 3TIX
Cl in 3TJ4
Cl in 3TJA
Cl in 3TI2
Cl in 3TIW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy