Go - LPA1 receptor complex model

GPCR CLASS (FAMILY)

A (Rhodopsin)

SPECIES

Homo sapiens

G PROTEIN FAMILY

Gi/o

DATE

2023-09-15

3D VIEW

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


Tertiary structure confidence

(pLDDT score) avg.: 87.5

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

PTM Score: 0.8
iPTM Score: 0.8
PAE mean: 12.3


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 I 344 G.H5.16
Van-der-waals TM5 Y 231 5x64 G.H5 I 344 G.H5.16
Hydrophobic C-term I 352 - G.HN I 28 G.HN.52
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 TM3 R 146 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 146 3x50 G.H5 L 353 G.H5.25
Hydrophobic ICL2 R 158 34x55 G.HN I 28 G.HN.52
Van-der-waals ICL2 R 158 34x55 G.HN I 28 G.HN.52
Hydrophobic TM5 V 232 5x65 G.H5 I 344 G.H5.16
Polar TM6 R 248 6x25 G.h4s6 N 316 G.h4s6.10
Hydrophobic TM6 R 248 6x25 G.h4s6 N 316 G.h4s6.10
Van-der-waals TM6 R 248 6x25 G.h4s6 N 316 G.h4s6.10
Polar TM6 T 259 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM6 T 259 6x36 G.H5 L 353 G.H5.25
Van-der-waals TM6 T 259 6x36 G.H5 L 353 G.H5.25
Polar ICL3 H 242 - G.S6 H 322 G.S6.04
Polar TM6 R 248 6x25 G.h4s6 P 315 G.h4s6.09
Hydrophobic TM6 R 248 6x25 G.h4s6 P 315 G.h4s6.09
Van-der-waals TM6 R 248 6x25 G.h4s6 P 315 G.h4s6.09
Hydrophobic ICL3 H 242 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 H 242 - G.S6 Y 320 G.S6.02
Hydrophobic C-term S 347 - G.h2s4 D 218 G.h2s4.03
Van-der-waals C-term S 347 - G.h2s4 D 218 G.h2s4.03
Hydrophobic ICL2 L 155 34x52 G.h2s4 T 220 G.h2s4.05
Van-der-waals ICL2 L 155 34x52 G.h2s4 T 220 G.h2s4.05
Polar TM7 R 314 7x56 G.H5 Y 354 G.H5.26
Hydrophobic TM7 R 314 7x56 G.H5 Y 354 G.H5.26
Van-der-waals TM7 R 314 7x56 G.H5 Y 354 G.H5.26
Polar TM6 R 248 6x25 G.H5 Y 354 G.H5.26
Hydrophobic TM5 Y 225 5x58 G.H5 L 353 G.H5.25
Polar ICL3 S 244 - G.H4 E 309 G.H4.16
Hydrophobic ICL3 S 244 - G.H4 E 309 G.H4.16
Van-der-waals ICL3 S 244 - G.H4 E 309 G.H4.16
Hydrophobic TM6 T 252 6x29 G.H5 L 348 G.H5.20
Polar TM7 R 314 7x56 G.H5 L 353 G.H5.25
Hydrophobic TM5 I 228 5x61 G.H5 L 353 G.H5.25
Polar TM6 R 248 6x25 G.h4s6 K 317 G.h4s6.11
Hydrophobic TM6 R 248 6x25 G.h4s6 K 317 G.h4s6.11
Van-der-waals TM6 R 248 6x25 G.h4s6 K 317 G.h4s6.11
Polar ICL2 H 156 34x53 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 H 156 34x53 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 H 156 34x53 G.hns1 A 31 G.hns1.02
Hydrophobic ICL3 S 243 - G.S6 Y 320 G.S6.02
Ionic C-term R 343 - G.h3s5 D 262 G.h3s5.02
Polar C-term R 343 - G.h3s5 D 262 G.h3s5.02
Hydrophobic C-term R 343 - G.h3s5 D 262 G.h3s5.02
Van-der-waals C-term R 343 - G.h3s5 D 262 G.h3s5.02
Hydrophobic C-term R 343 - G.h3s5 I 261 G.h3s5.01
Van-der-waals C-term R 343 - G.h3s5 I 261 G.h3s5.01
Hydrophobic TM3 T 149 3x53 G.H5 C 351 G.H5.23
Hydrophobic TM2 I 84 2x39 G.H5 C 351 G.H5.23
Ionic TM6 R 248 6x25 G.h4s6 E 318 G.h4s6.12
Polar TM6 R 248 6x25 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 R 248 6x25 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 R 248 6x25 G.h4s6 E 318 G.h4s6.12
Polar TM6 T 252 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 T 252 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 T 252 6x29 G.H5 Y 354 G.H5.26
Hydrophobic ICL2 M 153 34x50 G.H5 F 336 G.H5.08
Polar ICL2 R 158 34x55 G.HN K 24 G.HN.48
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 ICL2 L 155 34x52 G.S1 V 34 G.S1.02
Hydrophobic TM5 V 232 5x65 G.H5 L 348 G.H5.20
Polar ICL3 H 242 - G.S6 C 321 G.S6.03
Van-der-waals ICL3 H 242 - G.S6 C 321 G.S6.03
Hydrophobic ICL2 L 155 34x52 G.H5 I 343 G.H5.15
Van-der-waals ICL2 L 155 34x52 G.H5 I 343 G.H5.15
Hydrophobic TM6 L 256 6x33 G.H5 L 348 G.H5.20
Hydrophobic TM6 S 255 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 S 255 6x32 G.H5 Y 354 G.H5.26
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 TM5 R 235 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 R 235 5x68 G.H5 I 344 G.H5.16
Hydrophobic C-term R 343 - G.h4s6 N 316 G.h4s6.10
Van-der-waals C-term R 343 - G.h4s6 N 316 G.h4s6.10
Polar TM6 L 256 6x33 G.H5 L 353 G.H5.25
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
Hydrophobic C-term I 352 - G.HN K 24 G.HN.48
Van-der-waals C-term I 352 - G.HN K 24 G.HN.48
Van-der-waals ICL2 M 153 34x50 G.S3 L 195 G.S3.01
Polar TM3 R 146 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 146 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 146 3x50 G.H5 C 351 G.H5.23
Polar ICL2 Q 154 34x51 G.H5 N 347 G.H5.19
Van-der-waals ICL2 Q 154 34x51 G.H5 N 347 G.H5.19
Polar ICL3 S 244 - G.S6 I 319 G.S6.01
Van-der-waals ICL3 S 244 - G.S6 I 319 G.S6.01
Hydrophobic C-term S 341 - G.h3s5 I 261 G.h3s5.01
Hydrophobic ICL2 Q 154 34x51 G.H5 I 343 G.H5.15
Ionic TM5 R 238 5x71 G.H5 D 337 G.H5.09
Polar TM3 R 146 3x50 G.H5 G 352 G.H5.24
Hydrophobic ICL2 M 153 34x50 G.H5 T 340 G.H5.12
Van-der-waals ICL2 M 153 34x50 G.H5 T 340 G.H5.12
Hydrophobic TM5 R 235 5x68 G.H5 T 340 G.H5.12
Van-der-waals TM5 R 235 5x68 G.H5 T 340 G.H5.12
Hydrophobic ICL2 M 153 34x50 G.H5 I 343 G.H5.15
Hydrophobic TM5 M 239 5x72 G.H5 A 338 G.H5.10
Van-der-waals TM5 M 239 5x72 G.H5 A 338 G.H5.10
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
Polar C-term S 344 - G.h2s4 E 217 G.h2s4.02
Hydrophobic C-term S 344 - G.h2s4 E 217 G.h2s4.02
Van-der-waals C-term S 344 - G.h2s4 E 217 G.h2s4.02
Hydrophobic TM5 M 239 5x72 G.H5 D 341 G.H5.13