G13 - 5-HT1A 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

Chain pLDDT score avg
5-HT1A 82.8
subunit alpha-13 84.0
Gβ1 92.8
Gγ2 83.4
Very high (>90)
Confident (90-70)
Low (70-50)
Very low (<50)
Disordered

PTM Score: 0.8
iPTM Score: 0.7
PAE mean: 14.4


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, 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 I 142 34x51 G.S3 V 216 G.S3.01
Van-der-waals ICL2 I 142 34x51 G.S3 V 216 G.S3.01
Hydrophobic ICL2 P 141 34x50 G.H5 K 363 G.H5.12
Hydrophobic TM5 I 218 5x61 G.H5 L 374 G.H5.23
Van-der-waals TM5 I 218 5x61 G.H5 L 374 G.H5.23
Hydrophobic TM3 R 134 3x50 G.H5 L 374 G.H5.23
Van-der-waals TM3 R 134 3x50 G.H5 L 374 G.H5.23
Polar TM5 R 225 5x68 G.H5 K 363 G.H5.12
Van-der-waals TM5 R 225 5x68 G.H5 K 363 G.H5.12
Hydrophobic TM6 L 347 6x37 G.H5 L 374 G.H5.23
Hydrophobic TM6 N 325 6x15 G.H4 K 324 G.H4.09
Hydrophobic H8 N 404 8x47 G.H5 L 376 G.H5.25
Hydrophobic TM3 I 138 3x54 G.H5 L 371 G.H5.20
Hydrophobic TM7 I 399 7x52 G.H5 L 376 G.H5.25
Van-der-waals TM7 I 399 7x52 G.H5 L 376 G.H5.25
Hydrophobic ICL2 I 142 34x51 G.H5 I 366 G.H5.15
Hydrophobic TM6 R 339 6x29 G.H5 H 368 G.H5.17
Polar ICL3 G 237 - G.H4 K 324 G.H4.09
Hydrophobic ICL3 G 237 - G.H4 K 324 G.H4.09
Van-der-waals ICL3 G 237 - G.H4 K 324 G.H4.09
Polar ICL2 R 148 34x57 G.H5 Q 373 G.H5.22
Hydrophobic TM7 Y 400 7x53 G.H5 L 376 G.H5.25
Hydrophobic TM6 T 346 6x36 G.H5 M 375 G.H5.24
Van-der-waals H8 K 405 8x48 G.H5 Q 377 G.H5.26
Hydrophobic ICL2 P 141 34x50 G.H5 I 366 G.H5.15
Van-der-waals ICL2 P 141 34x50 G.H5 I 366 G.H5.15
Van-der-waals TM6 K 332 6x22 G.H4 R 331 G.H4.16
Polar ICL3 T 236 - G.H4 K 324 G.H4.09
Hydrophobic ICL3 T 236 - G.H4 K 324 G.H4.09
Van-der-waals ICL3 T 236 - G.H4 K 324 G.H4.09
Hydrophobic TM1 L 63 1x59 G.HN F 4 G.HN.04
Van-der-waals TM1 L 63 1x59 G.HN F 4 G.HN.04
Van-der-waals ICL2 V 145 34x54 G.hns1 K 46 G.hns1.02
Hydrophobic TM3 I 138 3x54 G.H5 L 374 G.H5.23
Van-der-waals TM3 I 138 3x54 G.H5 L 374 G.H5.23
Hydrophobic TM6 T 343 6x33 G.H5 M 375 G.H5.24
Van-der-waals TM6 T 343 6x33 G.H5 M 375 G.H5.24
Hydrophobic TM1 L 63 1x59 G.HN M 1 G.HN.01
Hydrophobic TM5 A 222 5x65 G.H5 L 371 G.H5.20
Van-der-waals TM5 A 222 5x65 G.H5 L 371 G.H5.20
Hydrophobic ICL2 I 142 34x51 G.H5 K 363 G.H5.12
Polar TM6 N 325 6x15 G.H4 E 328 G.H4.13
Hydrophobic TM3 I 138 3x54 G.H5 L 367 G.H5.16
Van-der-waals TM3 I 138 3x54 G.H5 L 367 G.H5.16
Hydrophobic ICL3 F 321 - G.H4 E 328 G.H4.13
Van-der-waals ICL3 F 321 - G.H4 E 328 G.H4.13
Ionic ICL3 D 239 - G.H4 R 320 G.H4.05
Polar ICL3 D 239 - G.H4 R 320 G.H4.05
Hydrophobic ICL3 D 239 - G.H4 R 320 G.H4.05
Van-der-waals ICL3 D 239 - G.H4 R 320 G.H4.05
Polar ICL2 N 146 34x55 G.hns1 R 47 G.hns1.03
Hydrophobic ICL2 N 146 34x55 G.hns1 R 47 G.hns1.03
Van-der-waals ICL2 N 146 34x55 G.hns1 R 47 G.hns1.03
Hydrophobic TM7 F 403 7x56 G.H5 L 376 G.H5.25
Van-der-waals TM7 F 403 7x56 G.H5 L 376 G.H5.25
Hydrophobic TM5 R 225 5x68 G.H5 L 367 G.H5.16
Van-der-waals TM5 R 225 5x68 G.H5 L 367 G.H5.16
Polar TM3 A 137 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 A 137 3x53 G.H5 N 370 G.H5.19
Van-der-waals TM3 A 137 3x53 G.H5 N 370 G.H5.19
Ionic TM5 K 232 5x75 G.H5 D 361 G.H5.10
Ionic TM5 R 225 5x68 G.H5 D 364 G.H5.13
Polar TM5 R 225 5x68 G.H5 D 364 G.H5.13
Van-der-waals TM5 R 225 5x68 G.H5 D 364 G.H5.13
Hydrophobic ICL1 Q 68 12x51 G.HN F 4 G.HN.04
Van-der-waals ICL1 Q 68 12x51 G.HN F 4 G.HN.04
Hydrophobic ICL2 P 141 34x50 G.H5 L 367 G.H5.16
Hydrophobic ICL3 F 321 - G.hgh4 E 313 G.hgh4.06
Hydrophobic ICL2 I 142 34x51 G.H5 F 359 G.H5.08
Van-der-waals ICL2 I 142 34x51 G.H5 F 359 G.H5.08
Polar TM6 K 342 6x32 G.H5 Q 377 G.H5.26
Hydrophobic TM6 K 342 6x32 G.H5 Q 377 G.H5.26
Van-der-waals TM6 K 342 6x32 G.H5 Q 377 G.H5.26
Hydrophobic H8 I 414 8x57 G.HN M 1 G.HN.01
Hydrophobic ICL2 V 145 34x54 G.H5 I 366 G.H5.15
Hydrophobic TM6 K 342 6x32 G.H5 M 375 G.H5.24
Hydrophobic TM6 T 346 6x36 G.H5 L 376 G.H5.25
Polar ICL3 S 320 - G.hgh4 E 313 G.hgh4.06
Van-der-waals TM5 K 232 5x75 G.H5 R 360 G.H5.09