G13 - S1P5 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.: 74.1

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

PTM Score: 0.5
iPTM Score: 0.4
PAE mean: 21.2


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, 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
Polar TM3 R 139 3x56 G.H5 N 370 G.H5.19
Hydrophobic ICL2 P 142 34x52 G.S1 L 48 G.S1.01
Van-der-waals ICL2 P 142 34x52 G.S1 L 48 G.S1.01
Hydrophobic TM5 V 219 5x65 G.H5 L 371 G.H5.20
Hydrophobic H8 L 313 8x50 G.H5 L 376 G.H5.25
Van-der-waals TM5 N 222 5x68 G.H5 L 367 G.H5.16
Polar ICL2 P 142 34x52 G.hns1 K 46 G.hns1.02
Hydrophobic ICL2 P 142 34x52 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 P 142 34x52 G.hns1 K 46 G.hns1.02
Hydrophobic TM5 R 225 5x71 G.H5 R 360 G.H5.09
Hydrophobic TM2 L 75 2x43 G.H5 L 376 G.H5.25
Van-der-waals TM2 L 75 2x43 G.H5 L 376 G.H5.25
Polar ICL2 G 141 34x51 G.H5 N 370 G.H5.19
Hydrophobic ICL2 R 140 34x50 G.H5 K 363 G.H5.12
Polar ICL2 S 146 34x56 G.hns1 K 46 G.hns1.02
Hydrophobic ICL2 S 146 34x56 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 S 146 34x56 G.hns1 K 46 G.hns1.02
Hydrophobic TM2 M 71 2x39 G.H5 L 376 G.H5.25
Van-der-waals TM2 M 71 2x39 G.H5 L 376 G.H5.25
Polar TM6 R 245 6x29 G.h4s6 K 340 G.h4s6.19
Hydrophobic TM6 R 245 6x29 G.h4s6 K 340 G.h4s6.19
Van-der-waals TM6 R 245 6x29 G.h4s6 K 340 G.h4s6.19
Hydrophobic TM6 L 249 6x33 G.H5 M 375 G.H5.24
Van-der-waals TM6 L 249 6x33 G.H5 M 375 G.H5.24
Hydrophobic TM6 L 249 6x33 G.H5 L 371 G.H5.20
Van-der-waals TM6 L 249 6x33 G.H5 L 371 G.H5.20
Hydrophobic ICL2 G 141 34x51 G.H5 I 366 G.H5.15
Van-der-waals ICL2 G 141 34x51 G.H5 I 366 G.H5.15
Polar TM3 T 136 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 T 136 3x53 G.H5 N 370 G.H5.19
Van-der-waals TM3 T 136 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 E 132 3x49 G.H5 L 374 G.H5.23
Hydrophobic TM6 S 246 6x30 G.H5 L 371 G.H5.20
Hydrophobic ICL2 P 142 34x52 G.h2s4 T 241 G.h2s4.05
Polar TM6 R 245 6x29 G.H5 H 368 G.H5.17
Hydrophobic TM6 R 245 6x29 G.H5 H 368 G.H5.17
Van-der-waals TM6 R 245 6x29 G.H5 H 368 G.H5.17
Hydrophobic TM6 S 246 6x30 G.H5 L 367 G.H5.16
Van-der-waals TM6 S 246 6x30 G.H5 L 367 G.H5.16
Polar H8 R 311 8x48 G.h4s6 Q 338 G.h4s6.12
Van-der-waals TM5 P 227 5x73 G.H5 R 360 G.H5.09
Hydrophobic TM2 F 72 2x40 G.H5 L 376 G.H5.25
Van-der-waals TM2 F 72 2x40 G.H5 L 376 G.H5.25
Hydrophobic TM3 M 137 3x54 G.H5 L 371 G.H5.20
Van-der-waals TM3 M 137 3x54 G.H5 L 371 G.H5.20
Hydrophobic ICL2 V 145 34x55 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 V 145 34x55 G.hns1 K 46 G.hns1.02
Hydrophobic TM2 M 71 2x39 G.H5 L 374 G.H5.23
Van-der-waals TM2 M 71 2x39 G.H5 L 374 G.H5.23
Hydrophobic ICL2 P 144 34x54 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 P 144 34x54 G.hns1 K 46 G.hns1.02
Polar TM5 N 222 5x68 G.H5 K 363 G.H5.12
Hydrophobic TM5 N 222 5x68 G.H5 K 363 G.H5.12
Van-der-waals TM5 N 222 5x68 G.H5 K 363 G.H5.12
Polar H8 N 310 8x47 G.H5 Q 377 G.H5.26
Hydrophobic H8 N 310 8x47 G.H5 Q 377 G.H5.26
Polar ICL2 R 140 34x50 G.s2s3 K 214 G.s2s3.01
Hydrophobic ICL2 A 143 34x53 G.H5 Q 373 G.H5.22
Van-der-waals ICL2 A 143 34x53 G.H5 Q 373 G.H5.22
Hydrophobic TM6 T 252 6x36 G.H5 M 375 G.H5.24
Van-der-waals TM6 T 252 6x36 G.H5 M 375 G.H5.24
Hydrophobic TM2 M 71 2x39 G.H5 Q 373 G.H5.22
Van-der-waals TM2 M 71 2x39 G.H5 Q 373 G.H5.22
Hydrophobic TM3 T 136 3x53 G.H5 L 374 G.H5.23
Hydrophobic TM5 L 226 5x72 G.H5 R 360 G.H5.09
Van-der-waals TM5 L 226 5x72 G.H5 R 360 G.H5.09
Polar TM6 R 245 6x29 G.h4s6 Q 339 G.h4s6.13
Hydrophobic TM6 R 245 6x29 G.h4s6 Q 339 G.h4s6.13
Van-der-waals TM6 R 245 6x29 G.h4s6 Q 339 G.h4s6.13
Hydrophobic ICL2 P 142 34x52 G.H5 I 366 G.H5.15
Hydrophobic TM6 L 249 6x33 G.H5 H 368 G.H5.17
Hydrophobic TM3 M 137 3x54 G.H5 L 367 G.H5.16
Van-der-waals TM3 M 137 3x54 G.H5 L 367 G.H5.16
Polar TM6 R 245 6x29 G.h4s6 Q 338 G.h4s6.12
Van-der-waals TM6 R 245 6x29 G.h4s6 Q 338 G.h4s6.12
Ionic TM6 R 239 6x23 G.H4 E 328 G.H4.13
Polar TM6 R 239 6x23 G.H4 E 328 G.H4.13
Polar ICL2 A 143 34x53 G.H5 N 370 G.H5.19
Hydrophobic ICL2 P 142 34x52 G.S1 V 49 G.S1.02
Polar H8 N 310 8x47 G.H5 L 376 G.H5.25
Hydrophobic H8 N 310 8x47 G.H5 L 376 G.H5.25
Van-der-waals H8 N 310 8x47 G.H5 L 376 G.H5.25
Polar TM5 T 232 5x78 G.H4 R 320 G.H4.05
Van-der-waals TM5 T 232 5x78 G.H4 R 320 G.H4.05
Hydrophobic TM6 R 245 6x29 G.h4s6 P 341 G.h4s6.20
Van-der-waals TM6 R 245 6x29 G.h4s6 P 341 G.h4s6.20
Hydrophobic TM7 Y 306 7x53 G.H5 L 376 G.H5.25
Van-der-waals TM7 Y 306 7x53 G.H5 L 376 G.H5.25
Polar TM3 R 133 3x50 G.H5 L 374 G.H5.23
Hydrophobic TM3 R 133 3x50 G.H5 L 374 G.H5.23
Van-der-waals TM3 R 133 3x50 G.H5 L 374 G.H5.23
Hydrophobic ICL2 G 141 34x51 G.hns1 R 47 G.hns1.03
Hydrophobic TM5 V 219 5x65 G.H5 L 367 G.H5.16
Hydrophobic ICL2 R 140 34x50 G.H5 F 359 G.H5.08
Hydrophobic ICL2 R 140 34x50 G.S3 V 216 G.S3.01
Van-der-waals ICL2 R 140 34x50 G.S3 V 216 G.S3.01
Polar TM7 T 309 7x56 G.H5 Q 377 G.H5.26
Hydrophobic TM7 T 309 7x56 G.H5 Q 377 G.H5.26
Van-der-waals TM7 T 309 7x56 G.H5 Q 377 G.H5.26
Hydrophobic ICL2 P 142 34x52 G.hns1 R 47 G.hns1.03
Hydrophobic TM3 R 133 3x50 G.H5 M 375 G.H5.24
Van-der-waals TM3 R 133 3x50 G.H5 M 375 G.H5.24
Hydrophobic ICL2 R 140 34x50 G.H5 I 366 G.H5.15