κ receptor - Gi1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Homo sapiens

GPCR PREFERRED CHAIN

R

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Homo sapiens

PDB CODE

7Y1F

RESOLUTION

3.3 Å

REFERENCE

10.1093/PROCEL/PWAC033

PUBLICATION DATE

May 24, 2023

3D VIEW

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

LIGAND INTERACTIONS

69 interactions (Click to see)

LIGANDS

dynorphin A-(1-8) - Agonist pubchem gtoplig chembl_ligand pubchem pubchem

PHYSIOLOGICAL LIGANDS

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



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 ICL3 L 360 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 L 360 - G.h4s6 E 318 G.h4s6.12
Hydrophobic C-term E 437 - G.H5 L 353 G.H5.25
Van-der-waals C-term E 437 - G.H5 L 353 G.H5.25
Polar C-term N 438 - G.H5 D 350 G.H5.22
Van-der-waals C-term N 438 - G.H5 D 350 G.H5.22
Hydrophobic ICL2 V 266 34x51 G.H5 F 336 G.H5.08
Polar ICL3 R 359 - G.H5 D 341 G.H5.13
Hydrophobic ICL2 P 265 34x50 G.H5 I 343 G.H5.15
Hydrophobic ICL2 L 269 34x54 G.hns1 R 32 G.hns1.03
Hydrophobic TM6 E 366 6x25 G.h4s6 D 315 G.h4s6.09
Van-der-waals TM6 E 366 6x25 G.h4s6 D 315 G.h4s6.09
Hydrophobic ICL2 R 272 34x57 G.H5 L 348 G.H5.20
Polar TM6 S 364 6x23 G.h4s6 D 315 G.h4s6.09
Van-der-waals TM6 S 364 6x23 G.h4s6 D 315 G.h4s6.09
Polar TM6 K 367 6x26 G.h4s6 D 315 G.h4s6.09
Hydrophobic TM6 K 367 6x26 G.h4s6 D 315 G.h4s6.09
Van-der-waals TM6 K 367 6x26 G.h4s6 D 315 G.h4s6.09
Hydrophobic C-term L 435 - G.H5 L 353 G.H5.25
Van-der-waals C-term L 435 - G.H5 L 353 G.H5.25
Hydrophobic TM5 L 355 5x65 G.H5 K 349 G.H5.21
Van-der-waals TM5 L 355 5x65 G.H5 K 349 G.H5.21
Hydrophobic ICL2 P 265 34x50 G.H5 T 340 G.H5.12
Van-der-waals ICL2 P 265 34x50 G.H5 T 340 G.H5.12
Hydrophobic ICL3 L 360 - G.H5 K 345 G.H5.17
Van-der-waals ICL3 L 360 - G.H5 K 345 G.H5.17
Hydrophobic ICL2 A 268 34x53 G.H5 L 348 G.H5.20
Van-der-waals ICL2 A 268 34x53 G.H5 L 348 G.H5.20
Hydrophobic TM6 L 377 6x36 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 377 6x36 G.H5 L 353 G.H5.25
Van-der-waals ICL3 R 359 - G.h4s6 E 318 G.h4s6.12
Hydrophobic TM3 R 258 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 258 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM6 N 370 6x29 G.H5 F 354 G.H5.26
Van-der-waals TM6 N 370 6x29 G.H5 F 354 G.H5.26
Polar TM6 K 367 6x26 G.h4s6 K 314 G.h4s6.08
Hydrophobic C-term E 437 - G.H5 F 354 G.H5.26
Van-der-waals C-term E 437 - G.H5 F 354 G.H5.26
Hydrophobic TM3 V 262 3x54 G.H5 K 349 G.H5.21
Van-der-waals TM3 V 262 3x54 G.H5 K 349 G.H5.21
Polar ICL3 R 359 - G.S6 I 319 G.S6.01
Hydrophobic ICL3 R 359 - G.S6 I 319 G.S6.01
Van-der-waals ICL3 R 359 - G.S6 I 319 G.S6.01
Hydrophobic ICL3 L 360 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 L 360 - G.H5 D 341 G.H5.13
Polar TM3 D 257 3x49 G.H5 C 351 G.H5.23
Hydrophobic TM3 D 257 3x49 G.H5 C 351 G.H5.23
Van-der-waals TM3 D 257 3x49 G.H5 C 351 G.H5.23
Hydrophobic TM2 T 196 2x39 G.H5 C 351 G.H5.23
Van-der-waals TM2 T 196 2x39 G.H5 C 351 G.H5.23
Hydrophobic ICL3 V 358 - G.H5 D 341 G.H5.13
Hydrophobic ICL3 L 361 - G.H5 F 354 G.H5.26
Van-der-waals ICL3 L 361 - G.H5 F 354 G.H5.26
Polar ICL2 R 272 34x57 G.H5 C 351 G.H5.23
Hydrophobic ICL2 R 272 34x57 G.H5 C 351 G.H5.23
Van-der-waals ICL2 R 272 34x57 G.H5 C 351 G.H5.23
Hydrophobic ICL3 V 358 - G.H5 I 344 G.H5.16
Van-der-waals TM6 I 374 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM3 R 258 3x50 G.H5 G 352 G.H5.24
Van-der-waals TM3 R 258 3x50 G.H5 G 352 G.H5.24
Hydrophobic ICL3 L 360 - G.h3s5 D 261 G.h3s5.02
Van-der-waals ICL3 L 360 - G.h3s5 D 261 G.h3s5.02
Hydrophobic TM3 A 261 3x53 G.H5 C 351 G.H5.23
Van-der-waals TM3 A 261 3x53 G.H5 C 351 G.H5.23
Hydrophobic TM6 I 374 6x33 G.H5 F 354 G.H5.26
Van-der-waals TM6 I 374 6x33 G.H5 F 354 G.H5.26
Hydrophobic ICL2 V 266 34x51 G.s2s3 D 193 G.s2s3.02
Hydrophobic TM2 T 196 2x39 G.H5 D 350 G.H5.22
Van-der-waals TM2 T 196 2x39 G.H5 D 350 G.H5.22
Hydrophobic C-term D 436 - G.H5 L 353 G.H5.25
Van-der-waals C-term D 436 - G.H5 L 353 G.H5.25
Hydrophobic ICL2 P 265 34x50 G.H5 L 348 G.H5.20
Van-der-waals ICL2 P 265 34x50 G.H5 L 348 G.H5.20
Aromatic ICL3 R 359 - G.S6 Y 320 G.S6.02
Hydrophobic ICL3 R 359 - G.S6 Y 320 G.S6.02
Hydrophobic TM3 A 261 3x53 G.H5 L 348 G.H5.20
Van-der-waals TM3 A 261 3x53 G.H5 L 348 G.H5.20
Hydrophobic ICL2 P 265 34x50 G.H5 I 344 G.H5.16
Van-der-waals ICL2 P 265 34x50 G.H5 I 344 G.H5.16