LPA1 receptor - G13

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Homo sapiens

GPCR PREFERRED CHAIN

R

G PROTEIN (FAMILY)

G12/13

G PROTEIN SPECIES

Homo sapiens

PDB CODE

9IZH

RESOLUTION

3.0 Å

REFERENCE

10.1016/J.JSB.2024.108164

PUBLICATION DATE

Jan. 1, 2025

3D VIEW

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

LIGAND INTERACTIONS

0 interactions (Click to see)

LIGANDS

lysophosphatidic acid - 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 TM5 Y 231 5x64 G.H5 L 220 G.H5.16
Hydrophobic ICL2 Q 154 - G.H5 I 219 G.H5.15
Ionic ICL3 R 247 - G.H5 D 222 G.H5.18
Polar ICL3 R 247 - G.H5 D 222 G.H5.18
Polar ICL3 H 242 - G.S6 H 198 G.S6.04
Aromatic ICL3 H 242 - G.S6 H 198 G.S6.04
Hydrophobic ICL3 H 242 - G.S6 H 198 G.S6.04
Van-der-waals ICL3 H 242 - G.S6 H 198 G.S6.04
Ionic ICL3 R 248 - G.H5 D 217 G.H5.13
Polar ICL3 R 248 - G.H5 D 217 G.H5.13
Hydrophobic ICL3 R 248 - G.H5 D 217 G.H5.13
Van-der-waals ICL3 R 248 - G.H5 D 217 G.H5.13
Van-der-waals ICL3 S 243 - G.h4s6 P 194 G.h4s6.20
Hydrophobic TM5 V 232 5x65 G.H5 L 224 G.H5.20
Hydrophobic ICL3 R 247 - G.H5 K 225 G.H5.21
Van-der-waals ICL2 Q 154 - G.hns1 K 31 G.hns1.02
Hydrophobic H8 D 315 8x47 G.H5 M 228 G.H5.24
Van-der-waals H8 D 315 8x47 G.H5 M 228 G.H5.24
Hydrophobic ICL2 M 153 - G.H5 K 216 G.H5.12
Van-der-waals ICL2 M 153 - G.H5 K 216 G.H5.12
Polar TM5 Y 231 5x64 G.H5 K 216 G.H5.12
Hydrophobic ICL2 M 153 - G.H5 I 219 G.H5.15
Hydrophobic TM6 L 256 6x33 G.H5 L 224 G.H5.20
Hydrophobic ICL3 S 244 - G.H4 R 184 G.H4.16
Van-der-waals ICL3 S 244 - G.H4 R 184 G.H4.16
Polar ICL4 R 314 - G.H5 Q 230 G.H5.26
Hydrophobic ICL4 R 314 - G.H5 Q 230 G.H5.26
Van-der-waals ICL4 R 314 - G.H5 Q 230 G.H5.26
Polar TM6 T 252 6x29 G.H5 Q 230 G.H5.26
Hydrophobic TM6 T 252 6x29 G.H5 Q 230 G.H5.26
Van-der-waals TM6 T 252 6x29 G.H5 Q 230 G.H5.26
Hydrophobic TM2 M 88 2x43 G.H5 M 228 G.H5.24
Van-der-waals TM2 M 88 2x43 G.H5 M 228 G.H5.24
Hydrophobic TM3 T 149 3x53 G.H5 L 227 G.H5.23
Van-der-waals TM3 T 149 3x53 G.H5 L 227 G.H5.23
Hydrophobic ICL2 M 153 - G.S3 F 81 G.S3.03
Polar ICL2 R 158 - G.S1 L 33 G.S1.01
Van-der-waals ICL2 R 158 - G.S1 L 33 G.S1.01
Hydrophobic ICL2 M 153 - G.S3 V 79 G.S3.01
Hydrophobic TM5 I 228 5x61 G.H5 L 229 G.H5.25
Ionic TM5 R 235 5x68 G.H5 D 217 G.H5.13
Polar ICL2 R 158 - G.hns1 K 31 G.hns1.02
Polar ICL3 H 242 - G.S6 H 197 G.S6.03
Hydrophobic ICL3 H 242 - G.S6 H 197 G.S6.03
Van-der-waals ICL3 H 242 - G.S6 H 197 G.S6.03
Hydrophobic ICL2 H 156 - G.H5 L 227 G.H5.23
Polar ICL2 H 156 - G.H5 N 223 G.H5.19
Polar TM6 S 255 6x32 G.H5 Q 230 G.H5.26
Hydrophobic ICL2 M 153 - G.H5 V 215 G.H5.11
Van-der-waals ICL2 M 153 - G.H5 V 215 G.H5.11
Hydrophobic TM6 L 256 6x33 G.H5 L 229 G.H5.25
Van-der-waals TM6 L 256 6x33 G.H5 L 229 G.H5.25
Hydrophobic ICL3 P 246 - G.h4s6 Q 190 G.h4s6.11
Van-der-waals ICL3 P 246 - G.h4s6 Q 190 G.h4s6.11
Hydrophobic TM2 I 84 2x39 G.H5 M 228 G.H5.24
Polar ICL3 R 247 - G.H5 H 221 G.H5.17
Hydrophobic ICL3 R 247 - G.H5 H 221 G.H5.17
Van-der-waals ICL3 R 247 - G.H5 H 221 G.H5.17
Polar ICL3 R 247 - G.h4s6 Q 192 G.h4s6.13
Polar TM3 R 146 3x50 G.H5 L 227 G.H5.23
Hydrophobic TM3 R 146 3x50 G.H5 L 227 G.H5.23
Polar ICL3 G 245 - G.S6 L 195 G.S6.01
Hydrophobic TM5 V 232 5x65 G.H5 L 220 G.H5.16
Hydrophobic ICL2 Q 154 - G.hns1 R 32 G.hns1.03
Hydrophobic ICL2 L 155 - G.H5 D 222 G.H5.18
Van-der-waals ICL2 L 155 - G.H5 D 222 G.H5.18
Hydrophobic TM3 R 146 3x50 G.H5 L 229 G.H5.25
Hydrophobic ICL4 R 314 - G.H5 M 228 G.H5.24
Van-der-waals ICL4 R 314 - G.H5 M 228 G.H5.24
Hydrophobic ICL2 L 155 - G.H5 I 219 G.H5.15
Hydrophobic ICL2 M 153 - G.H5 F 212 G.H5.08
Van-der-waals ICL2 M 153 - G.H5 F 212 G.H5.08
Hydrophobic ICL3 G 245 - G.h4s6 P 194 G.h4s6.20
Polar ICL2 T 157 - G.H5 Q 226 G.H5.22
Van-der-waals ICL2 T 157 - G.H5 Q 226 G.H5.22
Polar ICL2 Q 154 - G.H5 N 223 G.H5.19
Polar ICL3 R 248 - G.H5 H 221 G.H5.17
Aromatic ICL3 R 248 - G.H5 H 221 G.H5.17
Hydrophobic ICL3 R 248 - G.H5 H 221 G.H5.17
Van-der-waals ICL3 R 248 - G.H5 H 221 G.H5.17
Hydrophobic ICL2 V 150 - G.H5 L 220 G.H5.16
Hydrophobic TM5 M 239 5x72 G.H5 R 213 G.H5.09
Van-der-waals TM5 M 239 5x72 G.H5 R 213 G.H5.09
Hydrophobic ICL3 R 247 - G.h4s6 K 193 G.h4s6.19
Polar TM3 T 149 3x53 G.H5 N 223 G.H5.19
Hydrophobic TM3 T 149 3x53 G.H5 N 223 G.H5.19
Van-der-waals TM3 T 149 3x53 G.H5 N 223 G.H5.19
Hydrophobic TM5 M 239 5x72 G.H5 D 217 G.H5.13
Van-der-waals TM5 M 239 5x72 G.H5 D 217 G.H5.13
Polar TM2 Y 85 2x40 G.H5 Q 226 G.H5.22
Hydrophobic ICL3 R 247 - G.h4s6 P 194 G.h4s6.20
Van-der-waals ICL3 R 247 - G.h4s6 P 194 G.h4s6.20
Hydrophobic ICL2 V 150 - G.H5 L 227 G.H5.23
Van-der-waals ICL2 V 150 - G.H5 L 227 G.H5.23
Polar ICL3 S 244 - G.S6 L 195 G.S6.01
Hydrophobic ICL3 P 246 - G.h4s6 Q 191 G.h4s6.12
Van-der-waals ICL3 P 246 - G.h4s6 Q 191 G.h4s6.12
Hydrophobic TM5 Y 225 5x58 G.H5 L 229 G.H5.25
Polar ICL2 M 153 - G.hns1 R 32 G.hns1.03
Polar ICL3 R 248 - G.S6 Y 196 G.S6.02
Hydrophobic ICL3 R 248 - G.S6 Y 196 G.S6.02
Van-der-waals ICL3 R 248 - G.S6 Y 196 G.S6.02
Hydrophobic ICL3 H 242 - G.S6 Y 196 G.S6.02
Hydrophobic ICL2 H 156 - G.H5 Q 226 G.H5.22
Hydrophobic TM5 M 239 5x72 G.S6 Y 196 G.S6.02
Hydrophobic TM6 T 252 6x29 G.H5 H 221 G.H5.17
Hydrophobic TM2 Y 85 2x40 G.H5 M 228 G.H5.24
Hydrophobic TM2 I 84 2x39 G.H5 L 227 G.H5.23
Hydrophobic ICL3 S 243 - G.S6 Y 196 G.S6.02
Van-der-waals ICL3 S 243 - G.S6 Y 196 G.S6.02
Hydrophobic ICL2 V 150 - G.H5 L 229 G.H5.25