Ggust - S1P3 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.: 82.3

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

PTM Score: 0.7
iPTM Score: 0.7
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, 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 ICL2 M 143 34x50 G.S3 L 194 G.S3.01
Hydrophobic ICL2 R 144 34x51 G.H5 I 343 G.H5.15
Van-der-waals ICL2 R 144 34x51 G.H5 I 343 G.H5.15
Hydrophobic C-term F 376 - H.HA Q 79 H.HA.17
Hydrophobic C-term L 371 - H.HA V 72 H.HA.10
Van-der-waals C-term L 371 - H.HA V 72 H.HA.10
Polar TM3 R 136 3x50 G.H5 G 352 G.H5.24
Polar ICL2 Y 146 34x53 G.h2s4 G 217 G.h2s4.03
Polar TM3 R 136 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 136 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 136 3x50 G.H5 C 351 G.H5.23
Hydrophobic ICL2 M 143 34x50 G.H5 I 343 G.H5.15
Van-der-waals ICL2 M 143 34x50 G.H5 I 343 G.H5.15
Hydrophobic ICL2 A 148 34x55 G.hns1 A 31 G.hns1.02
Polar C-term N 373 - H.HA V 72 H.HA.10
Hydrophobic C-term N 373 - H.HA V 72 H.HA.10
Polar TM6 R 237 6x29 G.h4s6 E 315 G.h4s6.09
Hydrophobic TM6 R 237 6x29 G.h4s6 E 315 G.h4s6.09
Van-der-waals TM6 R 237 6x29 G.h4s6 E 315 G.h4s6.09
Hydrophobic ICL2 R 144 34x51 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 R 144 34x51 G.hns1 A 31 G.hns1.02
Hydrophobic TM7 A 301 7x56 G.H5 G 352 G.H5.24
Van-der-waals TM7 A 301 7x56 G.H5 G 352 G.H5.24
Ionic TM6 R 237 6x29 G.h4s6 E 318 G.h4s6.12
Polar TM6 R 237 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 R 237 6x29 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 R 237 6x29 G.h4s6 E 318 G.h4s6.12
Van-der-waals C-term N 373 - H.HA N 76 H.HA.14
Hydrophobic C-term L 371 - H.HA F 69 H.HA.07
Hydrophobic ICL3 V 229 - G.H5 A 338 G.H5.10
Hydrophobic TM6 N 234 6x26 G.S6 Y 320 G.S6.02
Van-der-waals TM6 N 234 6x26 G.S6 Y 320 G.S6.02
Hydrophobic TM6 N 234 6x26 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 N 234 6x26 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 L 241 6x33 G.H5 K 345 G.H5.17
Hydrophobic ICL3 V 229 - G.H5 D 337 G.H5.09
Van-der-waals ICL3 V 229 - G.H5 D 337 G.H5.09
Polar TM6 N 231 6x23 G.S6 S 321 G.S6.03
Van-der-waals TM6 N 231 6x23 G.S6 S 321 G.S6.03
Ionic TM5 K 228 5x71 G.H5 D 337 G.H5.09
Polar TM5 K 228 5x71 G.H5 D 337 G.H5.09
Hydrophobic TM5 K 228 5x71 G.H5 D 337 G.H5.09
Van-der-waals TM5 K 228 5x71 G.H5 D 337 G.H5.09
Ionic TM4 K 150 4x38 G.HN E 28 G.HN.52
Polar TM4 K 150 4x38 G.HN E 28 G.HN.52
Van-der-waals TM4 K 150 4x38 G.HN E 28 G.HN.52
Hydrophobic TM6 R 237 6x29 G.H5 F 354 G.H5.26
Van-der-waals TM6 R 237 6x29 G.H5 F 354 G.H5.26
Hydrophobic TM3 M 140 3x54 G.H5 N 347 G.H5.19
Van-der-waals TM3 M 140 3x54 G.H5 N 347 G.H5.19
Polar TM3 T 139 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 T 139 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 T 139 3x53 G.H5 N 347 G.H5.19
Polar C-term N 373 - H.HA S 75 H.HA.13
Hydrophobic C-term N 373 - H.HA S 75 H.HA.13
Van-der-waals C-term N 373 - H.HA S 75 H.HA.13
Hydrophobic ICL2 P 145 34x52 G.h2s4 T 219 G.h2s4.05
Hydrophobic TM6 R 237 6x29 G.H5 K 349 G.H5.21
Hydrophobic TM7 A 301 7x56 G.H5 F 354 G.H5.26
Van-der-waals TM7 A 301 7x56 G.H5 F 354 G.H5.26
Hydrophobic ICL3 V 229 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 V 229 - G.S6 Y 320 G.S6.02
Ionic TM6 R 237 6x29 G.h4s6 D 316 G.h4s6.10
Polar TM6 R 237 6x29 G.h4s6 D 316 G.h4s6.10
Hydrophobic TM6 R 237 6x29 G.h4s6 D 316 G.h4s6.10
Van-der-waals TM6 R 237 6x29 G.h4s6 D 316 G.h4s6.10
Polar TM5 S 226 5x69 G.H5 D 341 G.H5.13
Hydrophobic TM5 S 226 5x69 G.H5 D 341 G.H5.13
Van-der-waals TM5 S 226 5x69 G.H5 D 341 G.H5.13
Hydrophobic ICL2 P 145 34x52 G.S1 T 33 G.S1.01
Van-der-waals ICL2 P 145 34x52 G.S1 T 33 G.S1.01
Hydrophobic TM3 M 140 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 M 140 3x54 G.H5 L 348 G.H5.20
Polar ICL2 Y 146 34x53 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 Y 146 34x53 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 Y 146 34x53 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 P 145 34x52 G.H5 I 343 G.H5.15
Hydrophobic TM5 I 218 5x61 G.H5 L 348 G.H5.20
Polar TM6 N 234 6x26 G.H5 K 345 G.H5.17
Hydrophobic TM5 V 222 5x65 G.H5 L 348 G.H5.20
Van-der-waals TM5 V 222 5x65 G.H5 L 348 G.H5.20
Ionic ICL2 R 144 34x51 G.HN E 28 G.HN.52
Polar ICL2 P 145 34x52 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 P 145 34x52 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 P 145 34x52 G.hns1 A 31 G.hns1.02
Hydrophobic C-term L 371 - G.hfs2 V 179 G.hfs2.03
Van-der-waals C-term L 371 - G.hfs2 V 179 G.hfs2.03
Hydrophobic TM6 L 241 6x33 G.H5 F 354 G.H5.26
Van-der-waals TM6 L 241 6x33 G.H5 F 354 G.H5.26
Hydrophobic TM5 S 225 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 S 225 5x68 G.H5 I 344 G.H5.16
Hydrophobic TM3 R 136 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 136 3x50 G.H5 L 353 G.H5.25
Hydrophobic ICL2 P 145 34x52 G.S1 V 34 G.S1.02
Hydrophobic TM3 T 139 3x53 G.H5 C 351 G.H5.23
Hydrophobic TM5 L 221 5x64 G.H5 I 344 G.H5.16
Van-der-waals TM5 L 221 5x64 G.H5 I 344 G.H5.16
Hydrophobic TM5 V 222 5x65 G.H5 I 344 G.H5.16
Hydrophobic ICL2 M 143 34x50 G.H5 I 344 G.H5.16
Hydrophobic ICL2 M 143 34x50 G.H5 T 340 G.H5.12
Van-der-waals ICL2 M 143 34x50 G.H5 T 340 G.H5.12
Hydrophobic ICL2 P 145 34x52 G.S3 L 194 G.S3.01
Hydrophobic ICL2 R 144 34x51 G.hns1 R 32 G.hns1.03
Van-der-waals ICL2 R 144 34x51 G.hns1 R 32 G.hns1.03
Hydrophobic TM6 L 241 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 241 6x33 G.H5 L 353 G.H5.25
Hydrophobic ICL2 P 145 34x52 G.hns1 R 32 G.hns1.03
Hydrophobic C-term N 373 - H.hbhc D 116 H.hbhc.04
Van-der-waals C-term N 373 - H.hbhc D 116 H.hbhc.04
Polar TM5 S 225 5x68 G.H5 D 341 G.H5.13
Van-der-waals TM5 S 225 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM6 V 245 6x37 G.H5 L 353 G.H5.25
Hydrophobic ICL3 V 229 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 V 229 - G.H5 D 341 G.H5.13
Polar TM6 T 244 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM6 T 244 6x36 G.H5 L 353 G.H5.25
Van-der-waals TM6 T 244 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM2 M 74 2x39 G.H5 D 350 G.H5.22
Van-der-waals TM2 M 74 2x39 G.H5 D 350 G.H5.22
Polar TM6 N 231 6x23 G.H4 K 304 G.H4.12
Hydrophobic TM6 N 231 6x23 G.H4 K 304 G.H4.12
Van-der-waals TM6 N 231 6x23 G.H4 K 304 G.H4.12
Hydrophobic TM2 M 74 2x39 G.H5 C 351 G.H5.23
Van-der-waals TM2 M 74 2x39 G.H5 C 351 G.H5.23
Hydrophobic C-term L 371 - H.HA E 68 H.HA.06
Hydrophobic TM3 M 140 3x54 G.H5 I 344 G.H5.16
Hydrophobic TM6 L 241 6x33 G.H5 L 348 G.H5.20
Van-der-waals TM6 L 241 6x33 G.H5 L 348 G.H5.20