G13 - LPA1 receptor complex model

GPCR CLASS (FAMILY)

A (Rhodopsin)

SPECIES

Homo sapiens

G PROTEIN FAMILY

G12/13

DATE

2023-09-15

3D VIEW

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


Tertiary structure confidence

(pLDDT score) avg.: 84.6

Very high (>90)
Confident (90-70)
Low (70-50)
Very low (<50)
Disordered

PTM Score: 0.8
iPTM Score: 0.7
PAE mean: 14.9


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
Van-der-waals TM3 R 146 3x50 G.H5 L 376 G.H5.25
Polar C-term R 343 - G.H3 R 279 G.H3.16
Hydrophobic C-term R 343 - G.H3 R 279 G.H3.16
Van-der-waals C-term R 343 - G.H3 R 279 G.H3.16
Hydrophobic ICL2 M 153 34x50 G.H5 K 363 G.H5.12
Van-der-waals ICL2 M 153 34x50 G.H5 K 363 G.H5.12
Polar C-term S 341 - G.H3 R 279 G.H3.16
Hydrophobic C-term S 341 - G.H3 R 279 G.H3.16
Van-der-waals C-term S 341 - G.H3 R 279 G.H3.16
Polar TM6 T 252 6x29 G.H5 H 368 G.H5.17
Hydrophobic TM6 T 252 6x29 G.H5 H 368 G.H5.17
Van-der-waals TM6 T 252 6x29 G.H5 H 368 G.H5.17
Hydrophobic ICL3 S 243 - G.h4s6 P 341 G.h4s6.20
Polar TM3 T 149 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 T 149 3x53 G.H5 N 370 G.H5.19
Van-der-waals TM3 T 149 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM2 M 88 2x43 G.H5 L 376 G.H5.25
Van-der-waals TM2 M 88 2x43 G.H5 L 376 G.H5.25
Polar H8 D 315 8x47 G.H5 L 376 G.H5.25
Hydrophobic H8 D 315 8x47 G.H5 L 376 G.H5.25
Van-der-waals H8 D 315 8x47 G.H5 L 376 G.H5.25
Hydrophobic ICL2 L 155 34x52 G.h2s4 T 241 G.h2s4.05
Van-der-waals ICL2 L 155 34x52 G.h2s4 T 241 G.h2s4.05
Hydrophobic ICL2 M 153 34x50 G.H5 F 359 G.H5.08
Polar TM5 Y 231 5x64 G.H5 K 363 G.H5.12
Van-der-waals TM5 Y 231 5x64 G.H5 K 363 G.H5.12
Hydrophobic TM5 M 239 5x72 G.H5 D 364 G.H5.13
Van-der-waals TM5 M 239 5x72 G.H5 D 364 G.H5.13
Hydrophobic ICL2 L 155 34x52 G.H5 I 366 G.H5.15
Van-der-waals ICL2 L 155 34x52 G.H5 I 366 G.H5.15
Polar ICL3 S 244 - G.S6 L 342 G.S6.01
Hydrophobic ICL3 S 244 - G.S6 L 342 G.S6.01
Van-der-waals ICL3 S 244 - G.S6 L 342 G.S6.01
Aromatic ICL1 R 78 12x48 G.HN F 4 G.HN.04
Hydrophobic ICL1 R 78 12x48 G.HN F 4 G.HN.04
Van-der-waals ICL1 R 78 12x48 G.HN F 4 G.HN.04
Hydrophobic TM5 R 235 5x68 G.H5 L 367 G.H5.16
Van-der-waals TM5 R 235 5x68 G.H5 L 367 G.H5.16
Hydrophobic TM6 S 255 6x32 G.H5 M 375 G.H5.24
Van-der-waals TM6 S 255 6x32 G.H5 M 375 G.H5.24
Polar TM6 S 255 6x32 G.H5 Q 377 G.H5.26
Van-der-waals TM6 S 255 6x32 G.H5 Q 377 G.H5.26
Polar ICL3 S 244 - G.h4s6 R 334 G.h4s6.08
Hydrophobic ICL3 S 244 - G.h4s6 R 334 G.h4s6.08
Van-der-waals ICL3 S 244 - G.h4s6 R 334 G.h4s6.08
Polar C-term S 344 - G.H3 R 279 G.H3.16
Hydrophobic C-term S 344 - G.H3 R 279 G.H3.16
Van-der-waals C-term S 344 - G.H3 R 279 G.H3.16
Aromatic ICL3 H 242 - G.S6 H 345 G.S6.04
Hydrophobic ICL3 H 242 - G.S6 H 345 G.S6.04
Van-der-waals ICL3 H 242 - G.S6 H 345 G.S6.04
Hydrophobic TM5 Y 231 5x64 G.H5 L 367 G.H5.16
Hydrophobic ICL2 Q 154 34x51 G.H5 I 366 G.H5.15
Hydrophobic C-term A 345 - G.H3 R 279 G.H3.16
Van-der-waals C-term A 345 - G.H3 R 279 G.H3.16
Polar TM3 R 146 3x50 G.H5 L 374 G.H5.23
Hydrophobic TM3 R 146 3x50 G.H5 L 374 G.H5.23
Van-der-waals TM3 R 146 3x50 G.H5 L 374 G.H5.23
Polar C-term S 341 - G.h4s6 Q 339 G.h4s6.13
Van-der-waals C-term S 341 - G.h4s6 Q 339 G.h4s6.13
Hydrophobic TM2 Y 85 2x40 G.H5 L 376 G.H5.25
Polar TM5 R 235 5x68 G.H5 K 363 G.H5.12
Hydrophobic TM5 R 235 5x68 G.H5 K 363 G.H5.12
Van-der-waals TM5 R 235 5x68 G.H5 K 363 G.H5.12
Hydrophobic TM3 V 150 3x54 G.H5 L 367 G.H5.16
Hydrophobic ICL3 S 243 - G.S6 Y 343 G.S6.02
Polar TM6 R 248 6x25 G.h4s6 Q 338 G.h4s6.12
Hydrophobic TM6 R 248 6x25 G.h4s6 Q 338 G.h4s6.12
Van-der-waals TM6 R 248 6x25 G.h4s6 Q 338 G.h4s6.12
Hydrophobic TM3 V 150 3x54 G.H5 L 371 G.H5.20
Polar ICL2 H 156 34x53 G.hns1 K 46 G.hns1.02
Hydrophobic ICL2 H 156 34x53 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 H 156 34x53 G.hns1 K 46 G.hns1.02
Polar ICL3 H 242 - G.H5 R 360 G.H5.09
Aromatic ICL3 H 242 - G.H5 R 360 G.H5.09
Hydrophobic ICL3 H 242 - G.H5 R 360 G.H5.09
Aromatic ICL1 H 81 12x51 G.HN F 4 G.HN.04
Hydrophobic ICL1 H 81 12x51 G.HN F 4 G.HN.04
Van-der-waals ICL1 H 81 12x51 G.HN F 4 G.HN.04
Polar TM6 R 248 6x25 G.h4s6 Q 339 G.h4s6.13
Hydrophobic TM6 R 248 6x25 G.h4s6 Q 339 G.h4s6.13
Van-der-waals TM6 R 248 6x25 G.h4s6 Q 339 G.h4s6.13
Polar ICL2 T 157 34x54 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 T 157 34x54 G.hns1 K 46 G.hns1.02
Hydrophobic TM3 T 149 3x53 G.H5 L 374 G.H5.23
Hydrophobic TM6 L 256 6x33 G.H5 L 371 G.H5.20
Hydrophobic TM7 R 314 7x56 G.H5 L 376 G.H5.25
Van-der-waals TM7 R 314 7x56 G.H5 L 376 G.H5.25
Hydrophobic ICL3 S 243 - G.S6 L 342 G.S6.01
Van-der-waals ICL3 S 243 - G.S6 L 342 G.S6.01
Polar ICL3 H 242 - G.S6 H 344 G.S6.03
Hydrophobic ICL3 H 242 - G.S6 H 344 G.S6.03
Van-der-waals ICL3 H 242 - G.S6 H 344 G.S6.03
Hydrophobic TM5 M 239 5x72 G.S6 Y 343 G.S6.02
Van-der-waals TM5 M 239 5x72 G.S6 Y 343 G.S6.02
Ionic TM5 R 235 5x68 G.H5 D 364 G.H5.13
Polar TM5 R 235 5x68 G.H5 D 364 G.H5.13
Van-der-waals TM5 R 235 5x68 G.H5 D 364 G.H5.13
Hydrophobic TM5 V 232 5x65 G.H5 L 371 G.H5.20
Van-der-waals TM5 V 232 5x65 G.H5 L 371 G.H5.20
Hydrophobic TM6 L 256 6x33 G.H5 M 375 G.H5.24
Van-der-waals TM6 L 256 6x33 G.H5 M 375 G.H5.24
Hydrophobic TM7 Y 311 7x53 G.H5 L 376 G.H5.25
Van-der-waals TM7 Y 311 7x53 G.H5 L 376 G.H5.25
Hydrophobic ICL2 L 155 34x52 G.S1 V 49 G.S1.02
Hydrophobic TM3 V 150 3x54 G.H5 L 374 G.H5.23
Van-der-waals TM3 V 150 3x54 G.H5 L 374 G.H5.23
Hydrophobic ICL2 R 158 34x55 G.HN T 43 G.HN.52
Van-der-waals ICL2 R 158 34x55 G.HN T 43 G.HN.52
Hydrophobic TM6 T 252 6x29 G.H5 M 375 G.H5.24
Van-der-waals TM6 T 252 6x29 G.H5 M 375 G.H5.24
Hydrophobic ICL2 M 153 34x50 G.H5 I 366 G.H5.15
Hydrophobic TM5 R 238 5x71 G.H5 R 360 G.H5.09
Hydrophobic ICL3 H 242 - G.S6 Y 343 G.S6.02
Van-der-waals ICL3 H 242 - G.S6 Y 343 G.S6.02
Polar ICL2 Q 154 34x51 G.H5 N 370 G.H5.19
Van-der-waals ICL2 Q 154 34x51 G.H5 N 370 G.H5.19
Van-der-waals TM6 R 248 6x25 G.h4s6 K 340 G.h4s6.19
Polar ICL3 S 244 - G.H4 R 331 G.H4.16
Hydrophobic ICL3 S 244 - G.H4 R 331 G.H4.16
Van-der-waals ICL3 S 244 - G.H4 R 331 G.H4.16
Hydrophobic C-term D 342 - G.H3 R 279 G.H3.16
Hydrophobic TM1 V 76 1x59 G.HN M 1 G.HN.01