Go - D3 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.: 89.1

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

PTM Score: 0.8
iPTM Score: 0.8
PAE mean: 11.3


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 ICL2 V 136 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 V 136 34x51 G.S3 L 195 G.S3.01
Polar ICL3 K 311 - G.H4 D 299 G.H4.05
Van-der-waals ICL3 K 311 - G.H4 D 299 G.H4.05
Hydrophobic TM3 V 132 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 V 132 3x54 G.H5 L 348 G.H5.20
Hydrophobic ICL2 H 140 34x55 G.S3 H 196 G.S3.02
Hydrophobic TM6 M 330 6x36 G.H5 L 353 G.H5.25
Van-der-waals TM6 M 330 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM3 R 128 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 128 3x50 G.H5 L 353 G.H5.25
Ionic TM6 R 323 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 R 323 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 Q 139 34x54 G.H5 I 343 G.H5.15
Van-der-waals ICL2 Q 139 34x54 G.H5 I 343 G.H5.15
Hydrophobic ICL2 H 140 34x55 G.S3 L 195 G.S3.01
Polar ICL2 H 140 34x55 G.s2s3 N 194 G.s2s3.02
Hydrophobic ICL2 H 140 34x55 G.s2s3 N 194 G.s2s3.02
Van-der-waals ICL2 H 140 34x55 G.s2s3 N 194 G.s2s3.02
Polar TM6 R 318 6x24 G.h4s6 N 312 G.h4s6.02
Hydrophobic ICL2 Q 144 - G.HN I 28 G.HN.52
Van-der-waals ICL2 Q 144 - G.HN I 28 G.HN.52
Hydrophobic TM2 T 64 2x39 G.H5 C 351 G.H5.23
Ionic TM5 R 222 5x72 G.h4s6 E 318 G.h4s6.12
Polar TM5 R 222 5x72 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM5 R 222 5x72 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM5 R 222 5x72 G.h4s6 E 318 G.h4s6.12
Ionic TM5 R 222 5x72 G.H5 D 341 G.H5.13
Polar TM5 R 222 5x72 G.H5 D 341 G.H5.13
Hydrophobic TM5 R 222 5x72 G.H5 D 341 G.H5.13
Van-der-waals TM5 R 222 5x72 G.H5 D 341 G.H5.13
Ionic TM6 R 318 6x24 G.H4 E 309 G.H4.16
Polar TM6 R 318 6x24 G.H4 E 309 G.H4.16
Hydrophobic TM6 R 318 6x24 G.H4 E 309 G.H4.16
Van-der-waals TM6 R 318 6x24 G.H4 E 309 G.H4.16
Hydrophobic TM5 L 215 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM6 R 323 6x29 G.H5 R 349 G.H5.21
Van-der-waals TM6 R 323 6x29 G.H5 R 349 G.H5.21
Hydrophobic ICL3 L 312 - G.H4 Y 303 G.H4.10
Hydrophobic ICL2 P 135 34x50 G.H5 I 344 G.H5.16
Hydrophobic ICL3 L 310 - G.H4 A 302 G.H4.08
Van-der-waals ICL3 L 310 - G.H4 A 302 G.H4.08
Hydrophobic ICL3 L 315 - G.H4 A 306 G.H4.13
Van-der-waals ICL3 L 315 - G.H4 A 306 G.H4.13
Polar H8 N 387 8x47 G.H5 G 350 G.H5.22
Ionic TM5 K 221 5x71 G.H5 D 337 G.H5.09
Polar TM5 K 221 5x71 G.H5 D 337 G.H5.09
Van-der-waals TM5 K 221 5x71 G.H5 D 337 G.H5.09
Polar TM6 R 323 6x29 G.h4s6 N 316 G.h4s6.10
Hydrophobic TM6 R 323 6x29 G.h4s6 N 316 G.h4s6.10
Van-der-waals TM6 R 323 6x29 G.h4s6 N 316 G.h4s6.10
Hydrophobic TM5 R 218 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 R 218 5x68 G.H5 I 344 G.H5.16
Hydrophobic TM6 A 327 6x33 G.H5 L 348 G.H5.20
Van-der-waals TM6 K 326 6x32 G.H5 Y 354 G.H5.26
Polar TM3 A 131 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 131 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 131 3x53 G.H5 N 347 G.H5.19
Polar TM5 R 222 5x72 G.S6 Y 320 G.S6.02
Hydrophobic TM5 R 222 5x72 G.S6 Y 320 G.S6.02
Van-der-waals TM5 R 222 5x72 G.S6 Y 320 G.S6.02
Hydrophobic H8 N 387 8x47 G.H5 G 352 G.H5.24
Hydrophobic ICL2 G 143 34x58 G.HN I 28 G.HN.52
Van-der-waals ICL2 G 143 34x58 G.HN I 28 G.HN.52
Hydrophobic ICL3 N 232 - G.H4 E 298 G.H4.04
Van-der-waals ICL3 N 232 - G.H4 E 298 G.H4.04
Polar ICL2 H 140 34x55 G.hns1 K 32 G.hns1.03
Hydrophobic ICL2 H 140 34x55 G.hns1 K 32 G.hns1.03
Hydrophobic ICL3 L 312 - G.hgh4 Y 291 G.hgh4.05
Hydrophobic TM6 V 331 6x37 G.H5 L 353 G.H5.25
Polar TM3 R 128 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 128 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 128 3x50 G.H5 C 351 G.H5.23
Ionic TM5 R 226 5x76 G.H4 E 309 G.H4.16
Polar TM5 R 226 5x76 G.H4 E 309 G.H4.16
Hydrophobic ICL2 Y 138 34x53 G.H5 N 347 G.H5.19
Polar TM6 R 323 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 R 323 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 323 6x29 G.H5 Y 354 G.H5.26
Polar H8 N 387 8x47 G.H5 R 349 G.H5.21
Hydrophobic ICL2 V 136 34x51 G.s2s3 N 194 G.s2s3.02
Hydrophobic TM6 P 321 6x27 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 P 321 6x27 G.h4s6 E 318 G.h4s6.12
Polar TM6 A 327 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM6 A 327 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 327 6x33 G.H5 L 353 G.H5.25
Hydrophobic ICL2 P 135 34x50 G.H5 T 340 G.H5.12
Hydrophobic ICL2 P 135 34x50 G.H5 I 343 G.H5.15