Go - D5 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.: 81.0

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

PTM Score: 0.8
iPTM Score: 0.7
PAE mean: 13.4


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 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
Polar TM5 R 273 5x86 G.hgh4 Y 291 G.hgh4.05
Hydrophobic TM5 R 273 5x86 G.hgh4 Y 291 G.hgh4.05
Van-der-waals TM5 R 273 5x86 G.hgh4 Y 291 G.hgh4.05
Hydrophobic TM3 I 142 3x54 G.H5 L 353 G.H5.25
Ionic TM5 R 258 5x71 G.H5 D 341 G.H5.13
Polar TM5 R 258 5x71 G.H5 D 341 G.H5.13
Hydrophobic TM5 R 258 5x71 G.H5 D 341 G.H5.13
Van-der-waals TM5 R 258 5x71 G.H5 D 341 G.H5.13
Hydrophobic C-term I 411 - G.hfs2 K 181 G.hfs2.04
Van-der-waals C-term I 411 - G.hfs2 K 181 G.hfs2.04
Hydrophobic C-term I 394 - G.H3 M 249 G.H3.07
Hydrophobic TM5 A 269 5x82 G.H4 A 302 G.H4.08
Van-der-waals TM5 A 269 5x82 G.H4 A 302 G.H4.08
Polar C-term S 390 - G.H2 K 210 G.H2.05
Van-der-waals C-term S 390 - G.H2 K 210 G.H2.05
Hydrophobic C-term L 393 - G.H3 S 253 G.H3.11
Van-der-waals C-term L 393 - G.H3 S 253 G.H3.11
Polar TM3 R 138 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 138 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 138 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM5 I 251 5x64 G.H5 I 344 G.H5.16
Hydrophobic ICL2 P 145 34x50 G.H5 I 343 G.H5.15
Van-der-waals ICL2 P 145 34x50 G.H5 I 343 G.H5.15
Hydrophobic TM5 Q 255 5x68 G.H5 L 348 G.H5.20
Van-der-waals TM5 Q 255 5x68 G.H5 L 348 G.H5.20
Polar TM6 K 293 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM6 K 293 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 K 293 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM3 I 142 3x54 G.H5 I 344 G.H5.16
Hydrophobic C-term V 387 - G.H3 K 258 G.H3.16
Van-der-waals C-term V 387 - G.H3 K 258 G.H3.16
Hydrophobic TM5 A 266 5x79 G.H4 E 309 G.H4.16
Van-der-waals TM5 A 266 5x79 G.H4 E 309 G.H4.16
Hydrophobic ICL2 R 150 34x55 G.hns1 K 32 G.hns1.03
Polar C-term S 395 - G.H2 E 208 G.H2.03
Hydrophobic C-term S 395 - G.H2 E 208 G.H2.03
Van-der-waals C-term S 395 - G.H2 E 208 G.H2.03
Hydrophobic C-term L 393 - G.H2 K 210 G.H2.05
Hydrophobic ICL2 P 145 34x50 G.H5 I 344 G.H5.16
Polar TM4 Q 154 4x39 G.HN K 24 G.HN.48
Van-der-waals TM4 Q 154 4x39 G.HN K 24 G.HN.48
Hydrophobic C-term Y 410 - H.hbhc M 114 H.hbhc.02
Van-der-waals C-term Y 410 - H.hbhc M 114 H.hbhc.02
Polar H8 N 362 8x47 G.H5 G 350 G.H5.22
Van-der-waals H8 N 362 8x47 G.H5 G 350 G.H5.22
Hydrophobic C-term I 389 - G.H2 K 210 G.H2.05
Van-der-waals C-term I 389 - G.H2 K 210 G.H2.05
Polar C-term N 416 - G.hfs2 T 183 G.hfs2.06
Van-der-waals C-term N 416 - G.hfs2 T 183 G.hfs2.06
Hydrophobic C-term A 409 - H.HA Q 79 H.HA.17
Van-der-waals C-term A 409 - H.HA Q 79 H.HA.17
Polar TM5 R 273 5x86 G.H4 D 299 G.H4.05
Van-der-waals TM5 R 273 5x86 G.H4 D 299 G.H4.05
Hydrophobic TM5 Q 255 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 Q 255 5x68 G.H5 I 344 G.H5.16
Ionic TM6 K 290 6x29 G.h4s6 E 318 G.h4s6.12
Polar TM6 K 290 6x29 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 K 290 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 L 298 6x37 G.H5 L 353 G.H5.25
Van-der-waals TM6 L 298 6x37 G.H5 L 353 G.H5.25
Hydrophobic TM5 A 252 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM5 I 256 5x69 G.H5 Y 354 G.H5.26
Hydrophobic C-term I 400 - G.s4h3 E 237 G.s4h3.10
Hydrophobic TM3 I 142 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 I 142 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM6 T 297 6x36 G.H5 L 353 G.H5.25
Hydrophobic C-term M 414 - H.HA Y 69 H.HA.07
Hydrophobic TM6 I 301 6x40 G.H5 L 353 G.H5.25
Van-der-waals TM6 I 301 6x40 G.H5 L 353 G.H5.25
Hydrophobic TM5 I 259 5x72 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM5 I 259 5x72 G.h4s6 E 318 G.h4s6.12
Polar TM5 Q 255 5x68 G.H5 D 341 G.H5.13
Van-der-waals TM5 Q 255 5x68 G.H5 D 341 G.H5.13
Polar C-term H 412 - H.hbhc T 117 H.hbhc.05
Hydrophobic C-term H 412 - H.hbhc T 117 H.hbhc.05
Van-der-waals C-term H 412 - H.hbhc T 117 H.hbhc.05
Hydrophobic ICL2 F 146 34x51 G.H5 I 343 G.H5.15
Van-der-waals ICL2 F 146 34x51 G.H5 I 343 G.H5.15
Hydrophobic TM6 T 297 6x36 G.H5 G 352 G.H5.24
Van-der-waals TM6 T 297 6x36 G.H5 G 352 G.H5.24
Ionic TM5 R 258 5x71 G.H5 D 337 G.H5.09
Hydrophobic C-term I 406 - G.s4h3 H 236 G.s4h3.09
Van-der-waals C-term I 406 - G.s4h3 H 236 G.s4h3.09
Hydrophobic ICL2 F 146 34x51 G.H5 T 340 G.H5.12
Van-der-waals ICL2 F 146 34x51 G.H5 T 340 G.H5.12
Hydrophobic TM5 R 273 5x86 G.H4 Y 303 G.H4.10
Van-der-waals TM5 R 273 5x86 G.H4 Y 303 G.H4.10
Polar C-term Y 396 - G.H3 E 246 G.H3.04
Hydrophobic C-term Y 396 - G.H3 E 246 G.H3.04
Van-der-waals C-term Y 396 - G.H3 E 246 G.H3.04
Hydrophobic TM5 Q 255 5x68 G.H5 A 345 G.H5.17
Van-der-waals TM5 Q 255 5x68 G.H5 A 345 G.H5.17
Polar TM5 Q 270 5x83 G.H4 A 306 G.H4.13
Hydrophobic TM5 Q 270 5x83 G.H4 A 306 G.H4.13
Van-der-waals TM5 Q 270 5x83 G.H4 A 306 G.H4.13
Hydrophobic ICL2 F 146 34x51 G.H5 F 336 G.H5.08
Hydrophobic TM5 L 262 5x75 G.S6 Y 320 G.S6.02
Polar TM3 A 141 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 141 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 141 3x53 G.H5 N 347 G.H5.19
Hydrophobic C-term M 414 - H.HA Q 68 H.HA.06
Van-der-waals C-term M 414 - H.HA Q 68 H.HA.06
Hydrophobic ICL2 F 146 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 F 146 34x51 G.S3 L 195 G.S3.01
Hydrophobic TM5 R 273 5x86 G.hgh4 G 293 G.hgh4.07
Van-der-waals TM5 R 273 5x86 G.hgh4 G 293 G.hgh4.07
Hydrophobic C-term M 414 - G.hfs2 V 180 G.hfs2.03
Hydrophobic TM5 I 248 5x61 G.H5 L 353 G.H5.25
Van-der-waals TM5 I 248 5x61 G.H5 L 353 G.H5.25
Hydrophobic C-term I 411 - G.hfs2 V 180 G.hfs2.03
Hydrophobic C-term I 400 - G.s4h3 D 238 G.s4h3.11
Hydrophobic C-term M 413 - G.hfs2 T 183 G.hfs2.06
Van-der-waals C-term M 413 - G.hfs2 T 183 G.hfs2.06
Hydrophobic C-term L 393 - G.H3 N 257 G.H3.15
Van-der-waals C-term L 393 - G.H3 N 257 G.H3.15
Hydrophobic TM5 I 248 5x61 G.H5 L 348 G.H5.20
Hydrophobic TM3 I 142 3x54 G.H5 N 347 G.H5.19