Go - 5-HT1D 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.: 89.8

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

PTM Score: 0.9
iPTM Score: 0.8
PAE mean: 11.0


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 TM3 I 140 3x54 G.H5 C 351 G.H5.23
Hydrophobic TM7 F 359 7x56 G.H5 G 352 G.H5.24
Van-der-waals TM7 F 359 7x56 G.H5 G 352 G.H5.24
Polar ICL2 K 148 34x55 G.s2s3 N 194 G.s2s3.02
Hydrophobic ICL2 K 148 34x55 G.s2s3 N 194 G.s2s3.02
Van-der-waals ICL2 K 148 34x55 G.s2s3 N 194 G.s2s3.02
Hydrophobic ICL3 Y 235 - G.S6 C 321 G.S6.03
Polar ICL2 R 150 34x57 G.H5 N 347 G.H5.19
Hydrophobic ICL3 L 234 - G.H5 D 337 G.H5.09
Van-der-waals ICL3 L 234 - G.H5 D 337 G.H5.09
Hydrophobic ICL2 L 144 34x51 G.H5 F 336 G.H5.08
Van-der-waals ICL2 L 144 34x51 G.H5 F 336 G.H5.08
Hydrophobic ICL3 L 234 - G.H5 D 341 G.H5.13
Hydrophobic ICL2 L 144 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 L 144 34x51 G.S3 L 195 G.S3.01
Polar ICL3 K 237 - G.H4 Q 305 G.H4.12
Hydrophobic ICL3 K 237 - G.H4 Q 305 G.H4.12
Van-der-waals ICL3 K 237 - G.H4 Q 305 G.H4.12
Hydrophobic ICL3 G 236 - G.H4 Q 305 G.H4.12
Polar ICL3 Y 235 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 Y 235 - G.H5 D 341 G.H5.13
Aromatic ICL3 Y 235 - G.S6 Y 320 G.S6.02
Hydrophobic ICL3 Y 235 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 Y 235 - G.S6 Y 320 G.S6.02
Hydrophobic ICL2 A 143 34x50 G.H5 I 344 G.H5.16
Van-der-waals ICL2 A 143 34x50 G.H5 I 344 G.H5.16
Hydrophobic TM6 I 302 6x36 G.H5 G 352 G.H5.24
Van-der-waals TM6 I 302 6x36 G.H5 G 352 G.H5.24
Hydrophobic TM5 A 224 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM3 I 140 3x54 G.H5 L 353 G.H5.25
Hydrophobic TM6 A 299 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 299 6x33 G.H5 L 353 G.H5.25
Hydrophobic ICL3 L 234 - G.H5 A 338 G.H5.10
Hydrophobic TM6 I 302 6x36 G.H5 L 353 G.H5.25
Polar TM6 K 298 6x32 G.H5 G 352 G.H5.24
Hydrophobic TM6 K 298 6x32 G.H5 G 352 G.H5.24
Van-der-waals TM6 K 298 6x32 G.H5 G 352 G.H5.24
Polar ICL3 L 234 - G.S6 C 321 G.S6.03
Van-der-waals ICL3 L 234 - G.S6 C 321 G.S6.03
Hydrophobic ICL2 L 144 34x51 G.H5 T 340 G.H5.12
Polar TM6 R 295 6x29 G.H5 Y 354 G.H5.26
Aromatic TM6 R 295 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 R 295 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 295 6x29 G.H5 Y 354 G.H5.26
Polar TM3 A 139 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 139 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 139 3x53 G.H5 N 347 G.H5.19
Ionic ICL3 R 288 - G.h4s6 E 318 G.h4s6.12
Polar ICL3 R 288 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 R 288 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 Y 235 - G.S6 I 319 G.S6.01
Van-der-waals ICL3 Y 235 - G.S6 I 319 G.S6.01
Hydrophobic ICL2 A 143 34x50 G.H5 I 343 G.H5.15
Hydrophobic TM5 I 228 5x69 G.H5 Y 354 G.H5.26
Van-der-waals TM5 I 228 5x69 G.H5 Y 354 G.H5.26
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
Polar ICL3 Y 235 - G.H4 Q 305 G.H4.12
Van-der-waals ICL3 Y 235 - G.H4 Q 305 G.H4.12
Hydrophobic ICL3 L 234 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 L 234 - G.S6 Y 320 G.S6.02
Polar TM6 K 298 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM6 K 298 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 K 298 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM6 L 303 6x37 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 303 6x37 G.H5 L 353 G.H5.25
Polar H8 N 360 8x47 G.H5 G 350 G.H5.22
Van-der-waals H8 N 360 8x47 G.H5 G 350 G.H5.22
Hydrophobic TM3 I 140 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 I 140 3x54 G.H5 L 348 G.H5.20
Ionic TM5 R 227 5x68 G.H5 D 341 G.H5.13
Polar TM5 R 227 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM5 R 227 5x68 G.H5 D 341 G.H5.13
Van-der-waals TM5 R 227 5x68 G.H5 D 341 G.H5.13
Hydrophobic ICL3 F 239 - G.H4 Y 303 G.H4.10
Van-der-waals ICL3 F 239 - G.H4 Y 303 G.H4.10
Hydrophobic ICL2 L 144 34x51 G.H5 I 343 G.H5.15
Hydrophobic TM5 P 232 5x73 G.H5 D 341 G.H5.13
Polar ICL3 G 236 - G.S6 C 321 G.S6.03
Hydrophobic ICL3 G 236 - G.S6 C 321 G.S6.03
Van-der-waals ICL3 G 236 - G.S6 C 321 G.S6.03
Hydrophobic ICL3 Y 235 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 F 239 - G.H4 A 306 G.H4.13
Van-der-waals ICL3 F 239 - G.H4 A 306 G.H4.13
Ionic TM6 R 295 6x29 G.h4s6 E 318 G.h4s6.12
Polar TM6 R 295 6x29 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 R 295 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 F 239 - G.H4 A 302 G.H4.08
Van-der-waals ICL3 F 239 - G.H4 A 302 G.H4.08
Polar TM6 R 295 6x29 G.h4s6 P 315 G.h4s6.09
Van-der-waals TM6 R 295 6x29 G.h4s6 P 315 G.h4s6.09
Hydrophobic TM5 R 227 5x68 G.H5 L 348 G.H5.20
Hydrophobic TM4 T 151 4x38 G.HN I 28 G.HN.52
Hydrophobic TM5 I 220 5x61 G.H5 L 353 G.H5.25
Van-der-waals TM5 I 220 5x61 G.H5 L 353 G.H5.25
Ionic ICL3 K 237 - G.H4 E 298 G.H4.04
Polar ICL3 K 237 - G.H4 E 298 G.H4.04
Van-der-waals ICL3 K 237 - G.H4 E 298 G.H4.04