Rhodopsin - Gi1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Hasarius adansoni

GPCR PREFERRED CHAIN

R

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Homo sapiens

PDB CODE

9EPR

RESOLUTION

4.9 Å

REFERENCE

10.1038/S41467-024-53208-2

PUBLICATION DATE

Oct. 30, 2024

3D VIEW

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

LIGAND INTERACTIONS

25 interactions (Click to see)

LIGANDS

Retinal (11-cis) - Agonist pubchem

PHYSIOLOGICAL LIGANDS

No physiological ligands available



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
Ionic TM5 H 244 5x68 G.H5 D 341 G.H5.13
Polar TM5 H 244 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM5 H 244 5x68 G.H5 D 341 G.H5.13
Van-der-waals TM5 H 244 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM5 L 248 5x72 G.H5 D 341 G.H5.13
Van-der-waals TM5 L 248 5x72 G.H5 D 341 G.H5.13
Hydrophobic TM3 R 148 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 148 3x50 G.H5 L 353 G.H5.25
Hydrophobic TM5 M 255 5x79 G.S6 F 323 G.S6.05
Hydrophobic TM5 H 244 5x68 G.H5 D 337 G.H5.09
Polar TM3 R 148 3x50 G.H5 G 352 G.H5.24
Hydrophobic TM3 R 148 3x50 G.H5 G 352 G.H5.24
Van-der-waals TM3 R 148 3x50 G.H5 G 352 G.H5.24
Hydrophobic TM5 H 244 5x68 G.H5 T 340 G.H5.12
Van-der-waals TM5 H 244 5x68 G.H5 T 340 G.H5.12
Hydrophobic TM5 L 248 5x72 G.S6 Y 320 G.S6.02
Ionic TM5 R 249 5x73 G.h4s6 E 318 G.h4s6.12
Polar TM5 R 249 5x73 G.h4s6 E 318 G.h4s6.12
Polar TM6 R 274 6x32 G.H5 F 354 G.H5.26
Hydrophobic TM6 R 274 6x32 G.H5 F 354 G.H5.26
Van-der-waals TM6 R 274 6x32 G.H5 F 354 G.H5.26
Polar TM7 S 334 7x56 G.H5 F 354 G.H5.26
Van-der-waals TM7 S 334 7x56 G.H5 F 354 G.H5.26
Van-der-waals TM5 E 245 5x69 G.H5 D 341 G.H5.13
Van-der-waals ICL2 M 156 - G.hns1 A 31 G.hns1.02
Hydrophobic TM3 I 152 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM5 H 244 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 H 244 5x68 G.H5 I 344 G.H5.16
Hydrophobic TM3 I 152 3x54 G.H5 L 353 G.H5.25
Hydrophobic TM6 L 275 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 275 6x33 G.H5 L 353 G.H5.25
Polar TM5 L 248 5x72 G.H5 D 337 G.H5.09
Hydrophobic TM5 L 248 5x72 G.H5 D 337 G.H5.09
Polar H8 K 337 8x49 G.H5 C 351 G.H5.23
Polar H8 H 335 8x47 G.H5 G 352 G.H5.24
Hydrophobic H8 H 335 8x47 G.H5 G 352 G.H5.24
Van-der-waals H8 H 335 8x47 G.H5 G 352 G.H5.24
Hydrophobic ICL3 I 257 - G.S6 F 323 G.S6.05
Van-der-waals ICL3 I 257 - G.S6 F 323 G.S6.05
Hydrophobic TM5 M 255 5x79 G.s6h5 T 327 G.s6h5.04
Hydrophobic H8 K 337 8x49 G.H5 F 354 G.H5.26
Van-der-waals H8 K 337 8x49 G.H5 F 354 G.H5.26
Hydrophobic ICL2 M 156 - G.S3 L 194 G.S3.01
Van-der-waals ICL2 M 156 - G.S3 L 194 G.S3.01
Hydrophobic TM5 M 255 5x79 G.s6h5 C 325 G.s6h5.02
Hydrophobic H8 P 336 8x48 G.H5 F 354 G.H5.26
Van-der-waals H8 P 336 8x48 G.H5 F 354 G.H5.26
Hydrophobic TM5 R 249 5x73 G.S6 Y 320 G.S6.02
Van-der-waals TM5 R 249 5x73 G.S6 Y 320 G.S6.02