LPA1 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

7YU3

RESOLUTION

3.4 Å

REFERENCE

10.1038/S41467-022-33121-2

PUBLICATION DATE

Oct. 5, 2022

3D VIEW

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

LIGAND INTERACTIONS

46 interactions (Click to see)

LIGANDS

[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate - Agonist pubchem

PHYSIOLOGICAL LIGANDS

1-O-Oleoyl-D-glycerol 3-phosphoric acid



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 TM3 R 146 3x50 G.H5 L 353 G.H5.25
Hydrophobic TM3 T 149 3x53 G.H5 D 350 G.H5.22
Van-der-waals TM3 T 149 3x53 G.H5 D 350 G.H5.22
Hydrophobic ICL2 Q 154 - G.H5 I 343 G.H5.15
Hydrophobic TM6 T 259 6x36 G.H5 L 353 G.H5.25
Hydrophobic ICL2 Q 154 - G.hns1 R 32 G.hns1.03
Hydrophobic TM5 M 239 5x72 G.S6 Y 320 G.S6.02
Van-der-waals TM5 M 239 5x72 G.S6 Y 320 G.S6.02
Hydrophobic TM6 T 252 6x29 G.H5 K 345 G.H5.17
Hydrophobic TM5 I 228 5x61 G.H5 L 353 G.H5.25
Hydrophobic TM3 T 149 3x53 G.H5 C 351 G.H5.23
Van-der-waals TM3 T 149 3x53 G.H5 C 351 G.H5.23
Polar TM3 T 149 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 T 149 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 T 149 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM5 M 239 5x72 G.H5 F 334 G.H5.06
Van-der-waals TM5 M 239 5x72 G.H5 F 334 G.H5.06
Hydrophobic TM6 S 255 6x32 G.H5 F 354 G.H5.26
Hydrophobic ICL2 M 153 - G.S3 L 194 G.S3.01
Van-der-waals ICL2 M 153 - G.S3 L 194 G.S3.01
Hydrophobic ICL2 H 156 - G.h2s4 G 217 G.h2s4.03
Van-der-waals ICL2 H 156 - G.h2s4 G 217 G.h2s4.03
Hydrophobic TM5 R 235 5x68 G.H5 T 340 G.H5.12
Hydrophobic TM5 M 239 5x72 G.H5 D 337 G.H5.09
Van-der-waals TM5 M 239 5x72 G.H5 D 337 G.H5.09
Hydrophobic TM6 L 256 6x33 G.H5 L 348 G.H5.20
Polar TM3 V 150 3x54 G.H5 N 347 G.H5.19
Hydrophobic TM3 V 150 3x54 G.H5 N 347 G.H5.19
Van-der-waals TM3 V 150 3x54 G.H5 N 347 G.H5.19
Polar TM3 R 152 3x56 G.H5 N 347 G.H5.19
Hydrophobic TM3 R 152 3x56 G.H5 N 347 G.H5.19
Van-der-waals TM3 R 152 3x56 G.H5 N 347 G.H5.19
Hydrophobic TM3 V 150 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 V 150 3x54 G.H5 L 348 G.H5.20
Hydrophobic ICL2 L 155 - G.h2s4 T 219 G.h2s4.05
Hydrophobic TM3 V 150 3x54 G.H5 L 353 G.H5.25
Hydrophobic TM3 V 150 3x54 G.H5 C 351 G.H5.23
Hydrophobic ICL4 R 314 - G.H5 F 354 G.H5.26
Van-der-waals ICL4 R 314 - G.H5 F 354 G.H5.26
Hydrophobic TM5 M 239 5x72 G.H5 A 338 G.H5.10
Hydrophobic TM2 I 84 2x39 G.H5 C 351 G.H5.23
Van-der-waals TM2 I 84 2x39 G.H5 C 351 G.H5.23
Hydrophobic ICL2 L 155 - G.H5 N 346 G.H5.18
Van-der-waals ICL2 L 155 - G.H5 N 346 G.H5.18
Hydrophobic ICL2 L 155 - G.h2s4 V 218 G.h2s4.04
Hydrophobic TM6 T 252 6x29 G.H5 F 354 G.H5.26
Van-der-waals TM6 T 252 6x29 G.H5 F 354 G.H5.26
Hydrophobic TM5 V 232 5x65 G.H5 I 344 G.H5.16
Hydrophobic ICL2 M 153 - G.H5 T 340 G.H5.12
Hydrophobic TM2 I 84 2x39 G.H5 D 350 G.H5.22
Van-der-waals TM2 I 84 2x39 G.H5 D 350 G.H5.22
Hydrophobic TM5 Y 231 5x64 G.H5 I 344 G.H5.16
Van-der-waals TM5 Y 231 5x64 G.H5 I 344 G.H5.16
Hydrophobic TM5 T 236 5x69 G.H5 K 345 G.H5.17
Hydrophobic TM6 V 260 6x37 G.H5 L 353 G.H5.25
Hydrophobic TM5 V 232 5x65 G.H5 L 348 G.H5.20
Van-der-waals TM5 R 235 5x68 G.H5 F 336 G.H5.08
Hydrophobic ICL2 M 153 - G.H5 I 343 G.H5.15
Hydrophobic TM5 T 236 5x69 G.H5 D 341 G.H5.13
Ionic TM3 R 152 3x56 G.H5 D 350 G.H5.22
Polar TM3 R 152 3x56 G.H5 D 350 G.H5.22
Hydrophobic TM3 R 152 3x56 G.H5 D 350 G.H5.22
Van-der-waals TM3 R 152 3x56 G.H5 D 350 G.H5.22
Hydrophobic TM6 L 256 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 256 6x33 G.H5 L 353 G.H5.25
Polar TM3 R 146 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 146 3x50 G.H5 C 351 G.H5.23
Ionic TM5 R 238 5x71 G.H5 D 337 G.H5.09
Polar TM5 R 238 5x71 G.H5 D 337 G.H5.09
Hydrophobic TM5 R 238 5x71 G.H5 D 337 G.H5.09
Van-der-waals TM5 R 238 5x71 G.H5 D 337 G.H5.09
Hydrophobic TM5 Y 225 5x58 G.H5 L 353 G.H5.25