G13 - Y1 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.: 82.6

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

PTM Score: 0.7
iPTM Score: 0.7
PAE mean: 15.3


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 R 146 - G.S1 V 49 G.S1.02
Hydrophobic TM2 I 79 2x43 G.H5 L 376 G.H5.25
Hydrophobic TM5 M 245 5x72 G.S6 Y 343 G.S6.02
Van-der-waals TM5 M 245 5x72 G.S6 Y 343 G.S6.02
Van-der-waals TM5 R 237 5x64 G.H5 K 363 G.H5.12
Hydrophobic TM6 I 261 6x33 G.H5 L 371 G.H5.20
Van-der-waals TM6 I 261 6x33 G.H5 L 371 G.H5.20
Hydrophobic TM5 M 245 5x72 G.H5 D 364 G.H5.13
Van-der-waals TM5 M 245 5x72 G.H5 D 364 G.H5.13
Hydrophobic C-term I 350 - G.H3 R 279 G.H3.16
Van-der-waals C-term I 350 - G.H3 R 279 G.H3.16
Polar ICL3 R 249 - G.h4s6 P 341 G.h4s6.20
Hydrophobic ICL3 R 249 - G.h4s6 P 341 G.h4s6.20
Van-der-waals ICL3 R 249 - G.h4s6 P 341 G.h4s6.20
Polar H8 N 326 8x49 G.H5 Q 377 G.H5.26
Hydrophobic H8 N 326 8x49 G.H5 Q 377 G.H5.26
Van-der-waals H8 N 326 8x49 G.H5 Q 377 G.H5.26
Ionic TM6 R 254 6x26 G.H5 D 364 G.H5.13
Polar TM6 R 254 6x26 G.H5 D 364 G.H5.13
Van-der-waals TM6 R 254 6x26 G.H5 D 364 G.H5.13
Hydrophobic ICL1 K 69 12x48 G.HN M 1 G.HN.01
Hydrophobic C-term M 352 - G.H3 V 280 G.H3.17
Van-der-waals C-term M 352 - G.H3 V 280 G.H3.17
Hydrophobic ICL3 M 248 - G.S6 H 344 G.S6.03
Van-der-waals ICL3 M 248 - G.S6 H 344 G.S6.03
Polar C-term A 351 - G.H3 R 279 G.H3.16
Van-der-waals C-term A 351 - G.H3 R 279 G.H3.16
Hydrophobic TM3 I 142 3x54 G.H5 L 374 G.H5.23
Polar H8 N 326 8x49 G.H5 L 376 G.H5.25
Hydrophobic H8 N 326 8x49 G.H5 L 376 G.H5.25
Van-der-waals H8 N 326 8x49 G.H5 L 376 G.H5.25
Hydrophobic TM3 I 142 3x54 G.H5 L 367 G.H5.16
Van-der-waals TM3 I 142 3x54 G.H5 L 367 G.H5.16
Ionic TM6 D 250 6x22 G.H4 R 331 G.H4.16
Polar TM6 D 250 6x22 G.H4 R 331 G.H4.16
Hydrophobic TM6 D 250 6x22 G.H4 R 331 G.H4.16
Van-der-waals TM6 D 250 6x22 G.H4 R 331 G.H4.16
Polar ICL3 R 249 - G.S6 Y 343 G.S6.02
Aromatic ICL3 R 249 - G.S6 Y 343 G.S6.02
Hydrophobic ICL3 R 249 - G.S6 Y 343 G.S6.02
Van-der-waals ICL3 R 249 - G.S6 Y 343 G.S6.02
Hydrophobic TM6 I 261 6x33 G.H5 M 375 G.H5.24
Van-der-waals TM6 I 261 6x33 G.H5 M 375 G.H5.24
Hydrophobic H8 K 325 8x48 G.H5 Q 377 G.H5.26
Polar ICL3 R 249 - G.S5 I 286 G.S5.02
Van-der-waals ICL3 R 249 - G.S5 I 286 G.S5.02
Hydrophobic ICL1 M 71 12x50 G.H5 L 376 G.H5.25
Hydrophobic TM5 L 238 5x65 G.H5 L 367 G.H5.16
Polar ICL2 P 145 - G.H5 N 370 G.H5.19
Van-der-waals ICL2 P 145 - G.H5 N 370 G.H5.19
Hydrophobic TM6 R 260 6x32 G.H5 M 375 G.H5.24
Aromatic ICL1 R 72 12x51 G.HN F 4 G.HN.04
Hydrophobic ICL1 R 72 12x51 G.HN F 4 G.HN.04
Polar TM5 R 241 5x68 G.H5 K 363 G.H5.12
Hydrophobic TM5 R 241 5x68 G.H5 K 363 G.H5.12
Van-der-waals TM5 R 241 5x68 G.H5 K 363 G.H5.12
Polar TM3 R 138 3x50 G.H5 L 374 G.H5.23
Hydrophobic TM3 R 138 3x50 G.H5 L 374 G.H5.23
Van-der-waals TM3 R 138 3x50 G.H5 L 374 G.H5.23
Hydrophobic ICL2 R 146 - G.H5 I 366 G.H5.15
Van-der-waals ICL2 R 146 - G.H5 I 366 G.H5.15
Hydrophobic TM3 L 141 3x53 G.H5 L 374 G.H5.23
Hydrophobic ICL2 P 145 - G.H5 L 367 G.H5.16
Aromatic ICL2 R 146 - G.H5 F 359 G.H5.08
Hydrophobic ICL2 R 146 - G.H5 F 359 G.H5.08
Van-der-waals ICL2 R 146 - G.H5 F 359 G.H5.08
Hydrophobic TM2 N 76 2x40 G.H5 L 376 G.H5.25
Van-der-waals TM2 N 76 2x40 G.H5 L 376 G.H5.25
Hydrophobic TM5 R 241 5x68 G.H5 L 367 G.H5.16
Van-der-waals TM5 R 241 5x68 G.H5 L 367 G.H5.16
Polar H8 K 325 8x48 G.H5 L 376 G.H5.25
Hydrophobic ICL2 R 146 - G.S3 V 216 G.S3.01
Van-der-waals ICL2 R 146 - G.S3 V 216 G.S3.01
Hydrophobic TM6 E 257 6x29 G.H5 M 375 G.H5.24
Hydrophobic C-term M 352 - G.H3 R 279 G.H3.16
Van-der-waals C-term M 352 - G.H3 R 279 G.H3.16
Hydrophobic TM6 R 254 6x26 G.h4s6 P 341 G.h4s6.20
Van-der-waals TM6 R 254 6x26 G.h4s6 P 341 G.h4s6.20
Polar TM6 N 251 6x23 G.h4s6 Q 338 G.h4s6.12
Polar ICL3 R 249 - G.S6 L 342 G.S6.01
Hydrophobic ICL3 R 249 - G.S6 L 342 G.S6.01
Van-der-waals ICL3 R 249 - G.S6 L 342 G.S6.01
Hydrophobic ICL2 P 145 - G.H5 K 363 G.H5.12
Hydrophobic TM6 N 251 6x23 G.h4s6 P 341 G.h4s6.20
Van-der-waals TM6 N 251 6x23 G.h4s6 P 341 G.h4s6.20
Hydrophobic TM6 M 264 6x36 G.H5 M 375 G.H5.24
Van-der-waals TM6 M 264 6x36 G.H5 M 375 G.H5.24
Hydrophobic TM5 L 238 5x65 G.H5 L 371 G.H5.20
Van-der-waals TM5 L 238 5x65 G.H5 L 371 G.H5.20
Hydrophobic H8 N 324 8x47 G.H5 L 376 G.H5.25
Van-der-waals H8 N 324 8x47 G.H5 L 376 G.H5.25
Polar TM6 R 254 6x26 G.S6 Y 343 G.S6.02
Hydrophobic ICL3 M 248 - G.H5 R 360 G.H5.09
Van-der-waals ICL3 M 248 - G.H5 R 360 G.H5.09
Hydrophobic TM3 I 142 3x54 G.H5 L 371 G.H5.20
Van-der-waals TM3 I 142 3x54 G.H5 L 371 G.H5.20
Ionic TM6 E 257 6x29 G.H5 H 368 G.H5.17
Polar TM6 E 257 6x29 G.H5 H 368 G.H5.17
Hydrophobic TM6 E 257 6x29 G.H5 H 368 G.H5.17
Van-der-waals TM6 E 257 6x29 G.H5 H 368 G.H5.17
Hydrophobic ICL2 R 146 - G.H5 K 363 G.H5.12
Van-der-waals ICL2 R 146 - G.H5 K 363 G.H5.12
Polar ICL2 R 146 - G.hns1 R 47 G.hns1.03
Hydrophobic ICL1 K 69 12x48 G.HN F 4 G.HN.04
Van-der-waals ICL1 K 69 12x48 G.HN F 4 G.HN.04
Polar TM3 L 141 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 L 141 3x53 G.H5 N 370 G.H5.19
Van-der-waals TM3 L 141 3x53 G.H5 N 370 G.H5.19
Polar TM6 R 254 6x26 G.H5 H 368 G.H5.17
Aromatic TM6 R 254 6x26 G.H5 H 368 G.H5.17
Hydrophobic TM6 R 254 6x26 G.H5 H 368 G.H5.17
Van-der-waals TM6 R 254 6x26 G.H5 H 368 G.H5.17
Polar ICL2 R 149 - G.H5 N 370 G.H5.19
Van-der-waals ICL2 R 149 - G.H5 N 370 G.H5.19
Ionic TM5 R 241 5x68 G.H5 D 364 G.H5.13
Polar TM5 R 241 5x68 G.H5 D 364 G.H5.13
Hydrophobic TM5 R 241 5x68 G.H5 D 364 G.H5.13
Van-der-waals TM5 R 241 5x68 G.H5 D 364 G.H5.13
Hydrophobic TM1 K 67 1x59 G.HN M 1 G.HN.01
Van-der-waals TM1 K 67 1x59 G.HN M 1 G.HN.01
Polar TM5 R 241 5x68 G.H5 R 360 G.H5.09
Hydrophobic ICL3 M 248 - G.S6 H 345 G.S6.04
Van-der-waals ICL3 M 248 - G.S6 H 345 G.S6.04
Hydrophobic TM5 M 244 5x71 G.H5 R 360 G.H5.09
Van-der-waals TM5 M 244 5x71 G.H5 R 360 G.H5.09
Hydrophobic ICL2 P 145 - G.H5 I 366 G.H5.15
Van-der-waals ICL2 P 145 - G.H5 I 366 G.H5.15