G12 - GnRH1 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
GnRH1 79.9
subunit alpha-12 83.7
Gβ1 92.3
Gγ2 83.3
Very high (>90)
Confident (90-70)
Low (70-50)
Very low (<50)
Disordered

PTM Score: 0.8
iPTM Score: 0.7
PAE mean: 14.0


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 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 TM6 Q 253 6x21 G.S6 L 346 G.S6.01
Van-der-waals TM6 Q 253 6x21 G.S6 L 346 G.S6.01
Ionic TM6 R 262 6x30 G.H5 D 368 G.H5.13
Hydrophobic TM7 S 327 7x57 G.H5 L 380 G.H5.25
Hydrophobic ICL3 L 251 - G.H5 F 361 G.H5.06
Van-der-waals ICL3 L 251 - G.H5 F 361 G.H5.06
Hydrophobic ICL3 L 249 - G.S6 H 349 G.S6.04
Polar TM6 K 255 6x23 G.h4s6 R 342 G.h4s6.11
Hydrophobic TM6 A 261 6x29 G.H5 L 375 G.H5.20
Hydrophobic TM7 Y 323 7x53 G.H5 L 380 G.H5.25
Hydrophobic ICL2 P 146 34x50 G.H5 K 367 G.H5.12
Hydrophobic TM6 K 264 6x32 G.H5 M 379 G.H5.24
Van-der-waals TM6 K 264 6x32 G.H5 M 379 G.H5.24
Polar ICL3 N 252 - G.S6 H 348 G.S6.03
Hydrophobic ICL3 N 252 - G.S6 H 348 G.S6.03
Van-der-waals ICL3 N 252 - G.S6 H 348 G.S6.03
Hydrophobic ICL2 P 146 34x50 G.H5 L 371 G.H5.16
Hydrophobic ICL2 L 147 34x51 G.H5 I 370 G.H5.15
Van-der-waals ICL2 L 147 34x51 G.H5 I 370 G.H5.15
Hydrophobic TM2 M 76 2x39 G.H5 I 378 G.H5.23
Hydrophobic TM6 I 258 6x26 G.H5 L 371 G.H5.16
Van-der-waals ICL3 N 252 - G.S6 F 347 G.S6.02
Hydrophobic ICL3 L 251 - G.H5 D 368 G.H5.13
Hydrophobic TM1 F 56 1x53 G.H5 L 380 G.H5.25
Hydrophobic ICL3 L 251 - G.H5 H 364 G.H5.09
Polar TM6 S 254 6x22 G.S6 L 346 G.S6.01
Hydrophobic TM6 S 254 6x22 G.S6 L 346 G.S6.01
Van-der-waals TM6 S 254 6x22 G.S6 L 346 G.S6.01
Hydrophobic ICL2 P 146 34x50 G.H5 I 370 G.H5.15
Van-der-waals ICL2 P 146 34x50 G.H5 I 370 G.H5.15
Hydrophobic TM6 I 258 6x26 G.H5 D 368 G.H5.13
Van-der-waals TM6 I 258 6x26 G.H5 D 368 G.H5.13
Polar ICL2 K 150 - G.h2s4 T 246 G.h2s4.05
Hydrophobic ICL2 K 150 - G.h2s4 T 246 G.h2s4.05
Van-der-waals ICL2 K 150 - G.h2s4 T 246 G.h2s4.05
Hydrophobic TM6 M 268 6x36 G.H5 I 378 G.H5.23
Van-der-waals TM6 M 268 6x36 G.H5 I 378 G.H5.23
Hydrophobic TM6 A 261 6x29 G.H5 M 379 G.H5.24
Polar TM3 A 142 3x53 G.H5 N 374 G.H5.19
Hydrophobic TM3 A 142 3x53 G.H5 N 374 G.H5.19
Van-der-waals TM3 A 142 3x53 G.H5 N 374 G.H5.19
Polar TM2 M 76 2x39 G.H5 D 377 G.H5.22
Hydrophobic TM2 M 76 2x39 G.H5 D 377 G.H5.22
Van-der-waals TM2 M 76 2x39 G.H5 D 377 G.H5.22
Hydrophobic TM7 S 327 7x57 G.H5 M 379 G.H5.24
Van-der-waals TM7 S 327 7x57 G.H5 M 379 G.H5.24
Hydrophobic TM3 I 143 3x54 G.H5 L 375 G.H5.20
Hydrophobic ICL2 L 147 34x51 G.H5 V 366 G.H5.11
Polar ICL2 K 150 - G.S1 L 57 G.S1.01
Hydrophobic TM6 Q 253 6x21 G.h4s6 P 345 G.h4s6.20
Hydrophobic TM6 T 265 6x33 G.H5 I 378 G.H5.23
Van-der-waals TM6 T 265 6x33 G.H5 I 378 G.H5.23
Hydrophobic ICL2 L 147 34x51 G.S1 V 58 G.S1.02
Hydrophobic TM3 I 143 3x54 G.H5 I 378 G.H5.23
Hydrophobic TM2 L 80 2x43 G.H5 L 380 G.H5.25
Van-der-waals TM2 L 80 2x43 G.H5 L 380 G.H5.25
Hydrophobic TM4 K 154 4x40 G.hns1 R 55 G.hns1.02
Van-der-waals TM4 K 154 4x40 G.hns1 R 55 G.hns1.02
Hydrophobic ICL3 L 249 - G.H5 E 357 G.H5.02
Van-der-waals ICL3 L 249 - G.H5 E 357 G.H5.02
Hydrophobic TM1 W 63 1x60 G.H5 L 380 G.H5.25
Hydrophobic ICL3 L 251 - G.H5 A 365 G.H5.10
Van-der-waals ICL3 L 251 - G.H5 A 365 G.H5.10
Hydrophobic TM3 A 142 3x53 G.H5 I 378 G.H5.23
Polar TM6 S 254 6x22 G.h4s6 R 339 G.h4s6.08
Hydrophobic TM3 R 139 3x50 G.H5 I 378 G.H5.23
Hydrophobic TM6 I 258 6x26 G.H5 Q 372 G.H5.17
Polar ICL1 S 74 12x51 G.H5 D 377 G.H5.22
Hydrophobic ICL1 S 74 12x51 G.H5 D 377 G.H5.22
Van-der-waals ICL1 S 74 12x51 G.H5 D 377 G.H5.22
Hydrophobic ICL3 L 249 - G.H5 F 361 G.H5.06
Van-der-waals ICL3 L 249 - G.H5 F 361 G.H5.06
Hydrophobic TM6 R 262 6x30 G.H5 L 375 G.H5.20
Van-der-waals TM6 R 262 6x30 G.H5 L 375 G.H5.20
Hydrophobic ICL3 L 251 - G.S6 F 347 G.S6.02
Van-der-waals ICL3 L 251 - G.S6 F 347 G.S6.02
Hydrophobic ICL2 L 147 34x51 G.H5 K 367 G.H5.12
Hydrophobic ICL2 L 147 34x51 G.H5 F 363 G.H5.08
Van-der-waals ICL2 L 147 34x51 G.H5 F 363 G.H5.08
Hydrophobic TM2 K 77 2x40 G.H5 L 380 G.H5.25
Van-der-waals TM2 K 77 2x40 G.H5 L 380 G.H5.25
Hydrophobic ICL2 K 150 - G.H5 I 370 G.H5.15
Hydrophobic ICL3 L 249 - G.H5 R 360 G.H5.05
Van-der-waals ICL3 L 249 - G.H5 R 360 G.H5.05
Polar TM4 N 152 4x38 G.hns1 R 55 G.hns1.02
Hydrophobic TM6 R 262 6x30 G.H5 L 371 G.H5.16
Van-der-waals TM6 R 262 6x30 G.H5 L 371 G.H5.16
Polar ICL2 S 151 - G.hns1 R 55 G.hns1.02
Hydrophobic ICL2 S 151 - G.hns1 R 55 G.hns1.02
Van-der-waals ICL2 S 151 - G.hns1 R 55 G.hns1.02
Hydrophobic TM6 T 265 6x33 G.H5 L 375 G.H5.20
Van-der-waals TM6 T 265 6x33 G.H5 L 375 G.H5.20
Hydrophobic ICL2 L 147 34x51 G.S3 I 221 G.S3.01
Van-der-waals ICL2 L 147 34x51 G.S3 I 221 G.S3.01
Polar TM2 R 75 2x38 G.H5 D 377 G.H5.22
Van-der-waals ICL1 K 71 12x48 G.h3s5 N 288 G.h3s5.02
Hydrophobic TM3 I 143 3x54 G.H5 L 371 G.H5.16
Hydrophobic TM6 Q 253 6x21 G.S6 F 347 G.S6.02
Van-der-waals TM6 K 255 6x23 G.h4s6 P 345 G.h4s6.20