Go - Y5 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.: 88.1

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

PTM Score: 0.8
iPTM Score: 0.8
PAE mean: 11.7


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 ICL3 R 351 - G.H5 V 334 G.H5.06
Van-der-waals ICL3 R 351 - G.H5 V 334 G.H5.06
Ionic ICL3 R 354 - G.H4 E 309 G.H4.16
Polar ICL3 R 354 - G.H4 E 309 G.H4.16
Hydrophobic ICL3 R 354 - G.H4 E 309 G.H4.16
Van-der-waals ICL3 R 354 - G.H4 E 309 G.H4.16
Hydrophobic TM6 R 362 6x29 G.H5 A 345 G.H5.17
Van-der-waals TM6 R 362 6x29 G.H5 A 345 G.H5.17
Ionic TM6 R 358 6x25 G.H5 D 341 G.H5.13
Polar TM6 R 358 6x25 G.H5 D 341 G.H5.13
Hydrophobic TM6 R 358 6x25 G.H5 D 341 G.H5.13
Van-der-waals TM6 R 358 6x25 G.H5 D 341 G.H5.13
Polar ICL3 R 351 - G.S6 C 321 G.S6.03
Hydrophobic ICL3 R 351 - G.S6 C 321 G.S6.03
Van-der-waals ICL3 R 351 - G.S6 C 321 G.S6.03
Polar ICL3 R 351 - G.S6 H 322 G.S6.04
Hydrophobic ICL3 R 351 - G.S6 H 322 G.S6.04
Van-der-waals ICL3 R 351 - G.S6 H 322 G.S6.04
Hydrophobic TM4 T 152 4x38 G.HN I 28 G.HN.52
Hydrophobic TM5 I 238 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM6 V 366 6x33 G.H5 L 348 G.H5.20
Hydrophobic ICL3 M 254 - G.H4 Y 297 G.H4.03
Van-der-waals ICL3 M 254 - G.H4 Y 297 G.H4.03
Hydrophobic H8 N 429 8x47 G.H5 G 352 G.H5.24
Van-der-waals H8 N 429 8x47 G.H5 G 352 G.H5.24
Polar TM6 R 362 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 R 362 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 362 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 L 370 6x37 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 370 6x37 G.H5 L 353 G.H5.25
Hydrophobic TM6 R 369 6x36 G.H5 L 353 G.H5.25
Hydrophobic ICL2 P 146 - G.H5 I 343 G.H5.15
Van-der-waals ICL2 P 146 - G.H5 I 343 G.H5.15
Polar H8 N 430 8x48 G.H5 Y 354 G.H5.26
Polar TM6 R 358 6x25 G.S6 Y 320 G.S6.02
Aromatic TM6 R 358 6x25 G.S6 Y 320 G.S6.02
Hydrophobic TM6 R 358 6x25 G.S6 Y 320 G.S6.02
Van-der-waals TM6 R 358 6x25 G.S6 Y 320 G.S6.02
Polar ICL2 P 146 - G.H5 N 347 G.H5.19
Van-der-waals ICL2 P 146 - G.H5 N 347 G.H5.19
Polar TM6 R 369 6x36 G.H5 G 352 G.H5.24
Van-der-waals TM6 R 369 6x36 G.H5 G 352 G.H5.24
Hydrophobic ICL2 N 150 - G.hns1 K 32 G.hns1.03
Van-der-waals ICL2 N 150 - G.hns1 K 32 G.hns1.03
Polar ICL2 N 149 - G.H5 N 347 G.H5.19
Van-der-waals ICL2 N 149 - G.H5 N 347 G.H5.19
Polar TM3 M 142 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 M 142 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 M 142 3x53 G.H5 N 347 G.H5.19
Polar TM6 R 369 6x36 G.H5 Y 354 G.H5.26
Hydrophobic TM6 R 369 6x36 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 369 6x36 G.H5 Y 354 G.H5.26
Hydrophobic TM6 V 366 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 V 366 6x33 G.H5 L 353 G.H5.25
Hydrophobic ICL2 I 147 - G.S3 L 195 G.S3.01
Van-der-waals ICL2 I 147 - G.S3 L 195 G.S3.01
Hydrophobic TM3 I 143 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 I 143 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM3 M 142 3x53 G.H5 C 351 G.H5.23
Van-der-waals TM3 M 142 3x53 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 139 3x50 G.H5 L 353 G.H5.25
Ionic TM6 R 358 6x25 G.h4s6 E 318 G.h4s6.12
Polar TM6 R 358 6x25 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 R 358 6x25 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 R 358 6x25 G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 P 146 - G.H5 I 344 G.H5.16
Hydrophobic ICL3 M 254 - G.S6 M 323 G.S6.05
Van-der-waals ICL3 M 254 - G.S6 M 323 G.S6.05
Hydrophobic TM2 V 76 2x39 G.H5 C 351 G.H5.23
Hydrophobic TM6 R 362 6x29 G.H5 L 348 G.H5.20
Van-der-waals TM6 R 362 6x29 G.H5 L 348 G.H5.20
Hydrophobic TM3 I 143 3x54 G.H5 L 353 G.H5.25
Ionic TM6 R 362 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 M 254 - G.H4 A 301 G.H4.07
Polar TM4 N 154 4x40 G.HN K 24 G.HN.48
Polar TM3 R 139 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 139 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 139 3x50 G.H5 C 351 G.H5.23
Van-der-waals ICL3 R 354 - G.H4 Q 305 G.H4.12
Ionic TM5 R 248 5x75 G.H5 D 337 G.H5.09
Ionic TM6 R 362 6x29 G.H5 D 341 G.H5.13
Polar TM6 R 362 6x29 G.H5 D 341 G.H5.13