G15 - Y2 receptor complex model

GPCR CLASS (FAMILY)

A (Rhodopsin)

SPECIES

Homo sapiens

G PROTEIN FAMILY

Gq/11

DATE

2023-09-15

3D VIEW

NGL is a WebGL based 3D viewer powered by MMTF.


Tertiary structure confidence

Chain pLDDT score avg
Y2 76.1
subunit alpha-15 83.2
Very high (>90)
Confident (90-70)
Low (70-50)
Very low (<50)
Disordered

PTM Score: 0.7
iPTM Score: 0.6
PAE mean: 14.8


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 definitions:

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 TM5 P 252 5x71 G.H5 D 361 G.H5.13
Aromatic TM6 Y 259 6x26 G.h4s6 R 338 G.h4s6.20
Hydrophobic TM6 Y 259 6x26 G.h4s6 R 338 G.h4s6.20
Van-der-waals TM6 Y 259 6x26 G.h4s6 R 338 G.h4s6.20
Hydrophobic TM6 R 262 6x29 G.H5 L 374 G.H5.26
Van-der-waals TM6 R 262 6x29 G.H5 L 374 G.H5.26
Hydrophobic TM3 C 151 3x53 G.H5 Y 367 G.H5.19
Van-der-waals TM3 C 151 3x53 G.H5 Y 367 G.H5.19
Polar TM6 R 262 6x29 G.h4s6 R 335 G.h4s6.17
Hydrophobic TM6 R 262 6x29 G.h4s6 R 335 G.h4s6.17
Van-der-waals TM6 R 262 6x29 G.h4s6 R 335 G.h4s6.17
Ionic ICL2 K 159 - G.H5 E 370 G.H5.22
Polar ICL2 K 159 - G.H5 E 370 G.H5.22
Van-der-waals ICL2 K 159 - G.H5 E 370 G.H5.22
Hydrophobic ICL2 H 155 - G.H5 L 364 G.H5.16
Hydrophobic TM2 T 83 2x37 G.H5 E 370 G.H5.22
Hydrophobic TM4 S 161 4x38 G.hns1 R 40 G.hns1.02
Van-der-waals TM4 S 161 4x38 G.hns1 R 40 G.hns1.02
Polar H8 N 331 8x49 G.H5 N 372 G.H5.24
Hydrophobic H8 N 331 8x49 G.H5 N 372 G.H5.24
Van-der-waals H8 N 331 8x49 G.H5 N 372 G.H5.24
Hydrophobic TM3 C 151 3x53 G.H5 I 371 G.H5.23
Van-der-waals TM3 C 151 3x53 G.H5 I 371 G.H5.23
Ionic TM5 H 249 5x68 G.H5 D 361 G.H5.13
Polar TM5 H 249 5x68 G.H5 D 361 G.H5.13
Hydrophobic TM5 H 249 5x68 G.H5 D 361 G.H5.13
Van-der-waals TM5 H 249 5x68 G.H5 D 361 G.H5.13
Hydrophobic TM3 I 152 3x54 G.H5 L 373 G.H5.25
Van-der-waals TM3 I 152 3x54 G.H5 L 373 G.H5.25
Hydrophobic C-term F 357 - G.HN R 3 G.HN.03
Van-der-waals C-term F 357 - G.HN R 3 G.HN.03
Hydrophobic TM6 M 269 6x36 G.H5 L 373 G.H5.25
Polar TM5 S 251 5x70 G.h4s6 R 338 G.h4s6.20
Van-der-waals TM5 S 251 5x70 G.h4s6 R 338 G.h4s6.20
Hydrophobic TM5 L 246 5x65 G.H5 L 368 G.H5.20
Van-der-waals TM5 L 246 5x65 G.H5 L 368 G.H5.20
Polar ICL2 H 155 - G.H5 Y 367 G.H5.19
Hydrophobic ICL2 H 155 - G.H5 Y 367 G.H5.19
Van-der-waals ICL2 H 155 - G.H5 Y 367 G.H5.19
Polar H8 N 329 8x47 G.H5 N 372 G.H5.24
Hydrophobic H8 N 329 8x47 G.H5 N 372 G.H5.24
Van-der-waals H8 N 329 8x47 G.H5 N 372 G.H5.24
Polar H8 S 330 8x48 G.h4s6 R 335 G.h4s6.17
Hydrophobic H8 S 330 8x48 G.h4s6 R 335 G.h4s6.17
Hydrophobic ICL2 L 156 - G.H5 F 356 G.H5.08
Van-der-waals ICL2 L 156 - G.H5 F 356 G.H5.08
Hydrophobic ICL2 S 158 - G.hns1 R 40 G.hns1.02
Hydrophobic TM3 I 152 3x54 G.H5 L 364 G.H5.16
Polar H8 N 331 8x49 G.H5 D 369 G.H5.21
Van-der-waals H8 N 331 8x49 G.H5 D 369 G.H5.21
Hydrophobic TM5 H 249 5x68 G.H5 L 364 G.H5.16
Van-der-waals TM5 H 249 5x68 G.H5 L 364 G.H5.16
Hydrophobic TM5 P 252 5x71 G.S6 F 340 G.S6.02
Polar TM6 T 266 6x33 G.H5 L 373 G.H5.25
Hydrophobic TM6 T 266 6x33 G.H5 L 373 G.H5.25
Van-der-waals TM6 T 266 6x33 G.H5 L 373 G.H5.25
Hydrophobic ICL2 K 159 - G.H5 Y 367 G.H5.19
Van-der-waals ICL2 K 159 - G.H5 Y 367 G.H5.19
Hydrophobic TM6 L 270 6x37 G.H5 L 373 G.H5.25
Hydrophobic C-term H 350 - G.H5 E 370 G.H5.22
Van-der-waals C-term H 350 - G.H5 E 370 G.H5.22
Hydrophobic C-term A 359 - G.H3 W 266 G.H3.17
Van-der-waals C-term A 359 - G.H3 W 266 G.H3.17
Polar TM3 R 148 3x50 G.H5 I 371 G.H5.23
Hydrophobic TM3 R 148 3x50 G.H5 I 371 G.H5.23
Van-der-waals TM3 R 148 3x50 G.H5 I 371 G.H5.23
Polar ICL2 E 157 - G.H5 Y 367 G.H5.19
Hydrophobic ICL2 L 156 - G.S1 L 43 G.S1.02
Van-der-waals ICL2 L 156 - G.S1 L 43 G.S1.02
Hydrophobic ICL2 H 155 - G.H5 V 363 G.H5.15
Van-der-waals ICL2 H 155 - G.H5 V 363 G.H5.15
Hydrophobic TM3 I 152 3x54 G.H5 I 371 G.H5.23
Hydrophobic ICL2 L 156 - G.S3 T 202 G.S3.01
Van-der-waals ICL2 L 156 - G.S3 T 202 G.S3.01
Hydrophobic C-term V 355 - G.H3 P 265 G.H3.16
Hydrophobic C-term T 356 - G.h2s4 E 224 G.h2s4.02
Hydrophobic C-term L 363 - G.H3 W 266 G.H3.17
Hydrophobic TM3 I 152 3x54 G.H5 L 368 G.H5.20
Hydrophobic C-term L 363 - G.H2 I 220 G.H2.08
Van-der-waals C-term L 363 - G.H2 I 220 G.H2.08
Ionic C-term E 352 - G.H5 R 366 G.H5.18
Polar H8 S 330 8x48 G.H5 L 374 G.H5.26
Van-der-waals H8 S 330 8x48 G.H5 L 374 G.H5.26
Polar C-term S 351 - G.h3s5 S 269 G.h3s5.02
Van-der-waals C-term S 351 - G.h3s5 S 269 G.h3s5.02
Polar ICL2 H 155 - G.H5 R 360 G.H5.12
Hydrophobic ICL2 H 155 - G.H5 R 360 G.H5.12
Van-der-waals ICL2 H 155 - G.H5 R 360 G.H5.12
Hydrophobic ICL2 L 156 - G.H5 R 360 G.H5.12