κ receptor - Gi1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Homo sapiens

GPCR PREFERRED CHAIN

A

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Homo sapiens

PDB CODE

8DZP

RESOLUTION

2.7 Å

REFERENCE

10.1038/S41586-023-06030-7

PUBLICATION DATE

May 3, 2023

3D VIEW

NGL is a WebGL based 3D viewer powered by MMTF.

LIGAND INTERACTIONS

26 interactions (Click to see)

LIGANDS

SALVINORIN B METHOXYMETHYL ETHER - Agonist chembl_ligand pubchem

PHYSIOLOGICAL LIGANDS

big dynorphin, β-neoendorphin, [Met]enkephalin, α-neoendorphin, dynorphin A, [Leu]enkephalin, β-endorphin, dynorphin A-(1-13), dynorphin A-(1-8), dynorphin B



GPCR - G protein interface interactions



The biflare plot is a modified version of a flareplot, where lines are drawn between an inner concentric circle (Gα residues) and an outer concentric circle (GPCR residues) depicting the interface interactions.
Different interaction types are shown with different line types (aromatic - solid, hydrophobic - dashed, ionic - long dashed, polar - dotted, Van der Waals - dash-dot).
The interactive features include filtering on interaction type, segments, residues and backbone or sidechain interactions.


Interaction cut-off:

Residue numbering:

GPCR-G protein backbone (bb) or sidechain (sc):





Structures

Sequence Color

Gα, Gβ, Gγ, GPCR
Interaction cut-off: strict (stick), loose (line)

NGL is a WebGL based 3D viewer powered by MMTF.

Interaction
type		 GPCR
Segment
AA
Number		 Generic
number		 Gα
segment
AA
Number		 Generic
number
Hydrophobic ICL2 L 167 - G.H5 I 343 G.H5.15
Hydrophobic ICL3 R 257 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 R 257 - G.S6 Y 320 G.S6.02
Hydrophobic TM5 M 249 5x61 G.H5 L 353 G.H5.25
Van-der-waals TM5 M 249 5x61 G.H5 L 353 G.H5.25
Polar ICL3 R 257 - G.S6 I 319 G.S6.01
Polar H8 N 336 8x49 G.H5 D 350 G.H5.22
Hydrophobic TM3 R 156 3x50 G.H5 L 353 G.H5.25
Hydrophobic ICL3 L 258 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 L 258 - G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 K 265 6x26 G.h4s6 D 315 G.h4s6.09
Hydrophobic H8 E 335 8x48 G.H5 L 353 G.H5.25
Polar ICL2 R 170 - G.H5 C 351 G.H5.23
Hydrophobic ICL2 R 170 - G.H5 C 351 G.H5.23
Van-der-waals ICL2 R 170 - G.H5 C 351 G.H5.23
Hydrophobic TM5 R 252 5x64 G.H5 I 344 G.H5.16
Ionic ICL3 R 257 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 V 164 - G.S3 L 194 G.S3.01
Hydrophobic ICL2 P 163 - G.H5 T 340 G.H5.12
Hydrophobic TM3 R 156 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM6 I 272 6x33 G.H5 F 354 G.H5.26
Hydrophobic TM3 A 159 3x53 G.H5 C 351 G.H5.23
Van-der-waals TM3 A 159 3x53 G.H5 C 351 G.H5.23
Hydrophobic ICL3 L 259 - G.H5 L 348 G.H5.20
Hydrophobic TM6 I 272 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 I 272 6x33 G.H5 L 353 G.H5.25
Polar TM3 A 159 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 159 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 159 3x53 G.H5 N 347 G.H5.19
Hydrophobic ICL3 L 259 - G.H5 F 354 G.H5.26
Hydrophobic H8 E 335 8x48 G.H5 F 354 G.H5.26
Polar H8 N 336 8x49 G.H5 K 349 G.H5.21
Van-der-waals H8 N 336 8x49 G.H5 K 349 G.H5.21
Hydrophobic ICL2 P 163 - G.H5 I 343 G.H5.15
Van-der-waals ICL2 P 163 - G.H5 I 343 G.H5.15
Hydrophobic ICL2 P 163 - G.H5 I 344 G.H5.16
Van-der-waals ICL2 P 163 - G.H5 I 344 G.H5.16
Hydrophobic TM5 M 249 5x61 G.H5 L 348 G.H5.20
Ionic ICL2 D 168 - G.hns1 R 32 G.hns1.03
Polar ICL2 D 168 - G.hns1 R 32 G.hns1.03
Hydrophobic ICL2 D 168 - G.hns1 R 32 G.hns1.03
Van-der-waals ICL2 D 168 - G.hns1 R 32 G.hns1.03
Hydrophobic ICL3 L 258 - G.H5 K 345 G.H5.17
Van-der-waals ICL3 L 258 - G.H5 K 345 G.H5.17
Hydrophobic ICL3 L 258 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 L 258 - G.S6 Y 320 G.S6.02
Hydrophobic ICL3 V 256 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 V 256 - G.H5 D 341 G.H5.13
Ionic ICL2 R 170 - G.H5 D 350 G.H5.22
Polar ICL2 R 170 - G.H5 D 350 G.H5.22
Hydrophobic ICL2 R 170 - G.H5 D 350 G.H5.22
Van-der-waals ICL2 R 170 - G.H5 D 350 G.H5.22
Hydrophobic H8 D 334 8x47 G.H5 G 352 G.H5.24
Van-der-waals H8 D 334 8x47 G.H5 G 352 G.H5.24
Hydrophobic H8 N 336 8x49 G.H5 G 352 G.H5.24
Van-der-waals H8 N 336 8x49 G.H5 G 352 G.H5.24
Ionic TM6 K 265 6x26 G.h4s6 E 318 G.h4s6.12
Polar TM6 K 265 6x26 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 K 265 6x26 G.h4s6 E 318 G.h4s6.12
Polar ICL2 R 170 - G.H5 N 347 G.H5.19
Polar TM6 R 271 6x32 G.H5 L 353 G.H5.25
Hydrophobic TM5 L 253 5x65 G.H5 L 348 G.H5.20
Polar H8 E 335 8x48 G.H5 G 352 G.H5.24
Hydrophobic H8 E 335 8x48 G.H5 G 352 G.H5.24
Van-der-waals H8 E 335 8x48 G.H5 G 352 G.H5.24
Hydrophobic TM5 L 253 5x65 G.H5 I 344 G.H5.16
Polar TM2 T 94 2x39 G.H5 C 351 G.H5.23
Hydrophobic TM2 T 94 2x39 G.H5 C 351 G.H5.23
Hydrophobic ICL3 V 256 - G.H5 I 344 G.H5.16
Hydrophobic ICL2 V 164 - G.s2s3 D 193 G.s2s3.02
Polar ICL3 R 257 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 R 257 - G.H5 D 341 G.H5.13
Polar TM6 R 271 6x32 G.H5 F 354 G.H5.26
Aromatic TM6 R 271 6x32 G.H5 F 354 G.H5.26
Hydrophobic TM6 R 271 6x32 G.H5 F 354 G.H5.26
Van-der-waals TM6 R 271 6x32 G.H5 F 354 G.H5.26
Polar ICL3 L 258 - G.H5 D 341 G.H5.13
Hydrophobic ICL2 L 167 - G.hns1 R 32 G.hns1.03
Hydrophobic ICL2 L 167 - G.S3 L 194 G.S3.01
Polar ICL1 T 92 - G.H5 D 350 G.H5.22
Hydrophobic TM3 V 160 3x54 G.H5 L 348 G.H5.20
Van-der-waals ICL2 P 163 - G.H5 N 347 G.H5.19
Ionic TM5 R 252 5x64 G.H5 D 341 G.H5.13
Hydrophobic TM2 T 94 2x39 G.H5 D 350 G.H5.22
Van-der-waals TM2 T 94 2x39 G.H5 D 350 G.H5.22