Ggust - P2RY8 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.: 81.5

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

PTM Score: 0.7
iPTM Score: 0.6
PAE mean: 14.2


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, 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 TM4 R 138 4x40 G.HN Q 24 G.HN.48
Hydrophobic TM4 R 138 4x40 G.HN Q 24 G.HN.48
Van-der-waals TM4 R 138 4x40 G.HN Q 24 G.HN.48
Hydrophobic TM6 Q 231 6x30 G.H5 F 354 G.H5.26
Van-der-waals TM6 Q 231 6x30 G.H5 F 354 G.H5.26
Polar C-term R 321 - G.h3s5 T 261 G.h3s5.02
Hydrophobic C-term R 321 - G.h3s5 T 261 G.h3s5.02
Van-der-waals C-term R 321 - G.h3s5 T 261 G.h3s5.02
Polar C-term R 354 - G.H3 H 248 G.H3.07
Aromatic C-term R 354 - G.H3 H 248 G.H3.07
Hydrophobic C-term R 354 - G.H3 H 248 G.H3.07
Van-der-waals C-term R 354 - G.H3 H 248 G.H3.07
Hydrophobic C-term F 359 - G.H3 S 252 G.H3.11
Van-der-waals C-term F 359 - G.H3 S 252 G.H3.11
Hydrophobic TM6 L 238 6x37 G.H5 L 353 G.H5.25
Polar C-term S 357 - G.H3 S 252 G.H3.11
Hydrophobic C-term S 357 - G.H3 S 252 G.H3.11
Van-der-waals C-term S 357 - G.H3 S 252 G.H3.11
Hydrophobic ICL3 A 226 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 A 226 - G.S6 Y 320 G.S6.02
Hydrophobic TM6 L 238 6x37 G.H5 G 352 G.H5.24
Van-der-waals TM6 L 238 6x37 G.H5 G 352 G.H5.24
Hydrophobic C-term L 325 - G.h2s4 V 218 G.h2s4.04
Hydrophobic C-term F 359 - G.H2 W 211 G.H2.07
Van-der-waals C-term F 359 - G.H2 W 211 G.H2.07
Ionic H8 R 298 8x48 G.h4s6 D 316 G.h4s6.10
Polar H8 R 298 8x48 G.h4s6 D 316 G.h4s6.10
Hydrophobic C-term L 318 - G.h3s5 T 261 G.h3s5.02
Van-der-waals C-term L 318 - G.h3s5 T 261 G.h3s5.02
Polar ICL2 R 135 34x57 G.H5 C 351 G.H5.23
Hydrophobic ICL2 R 135 34x57 G.H5 C 351 G.H5.23
Van-der-waals ICL2 R 135 34x57 G.H5 C 351 G.H5.23
Hydrophobic TM6 A 235 6x34 G.H5 L 348 G.H5.20
Polar TM3 R 121 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 121 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 121 3x50 G.H5 C 351 G.H5.23
Hydrophobic C-term S 324 - G.h2s4 E 216 G.h2s4.02
Van-der-waals C-term F 326 - G.S1 T 33 G.S1.01
Polar TM3 E 120 3x49 G.H5 C 351 G.H5.23
Hydrophobic TM3 E 120 3x49 G.H5 C 351 G.H5.23
Polar C-term R 321 - G.H3 Y 258 G.H3.17
Hydrophobic C-term R 321 - G.H3 Y 258 G.H3.17
Van-der-waals C-term R 321 - G.H3 Y 258 G.H3.17
Polar ICL2 R 135 34x57 G.H5 N 347 G.H5.19
Hydrophobic ICL2 R 135 34x57 G.H5 N 347 G.H5.19
Van-der-waals ICL2 R 135 34x57 G.H5 N 347 G.H5.19
Hydrophobic ICL3 H 227 - G.H5 K 345 G.H5.17
Hydrophobic C-term F 359 - G.H3 I 253 G.H3.12
Van-der-waals C-term F 359 - G.H3 I 253 G.H3.12
Polar TM6 Q 231 6x30 G.H5 K 345 G.H5.17
Hydrophobic TM6 Q 231 6x30 G.H5 K 345 G.H5.17
Van-der-waals TM6 Q 231 6x30 G.H5 K 345 G.H5.17
Polar H8 R 298 8x48 G.H5 F 354 G.H5.26
Hydrophobic H8 R 298 8x48 G.H5 F 354 G.H5.26
Van-der-waals H8 R 298 8x48 G.H5 F 354 G.H5.26
Polar TM6 A 235 6x34 G.H5 L 353 G.H5.25
Hydrophobic TM6 A 235 6x34 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 235 6x34 G.H5 L 353 G.H5.25
Ionic C-term R 354 - G.H3 E 245 G.H3.04
Polar C-term R 354 - G.H3 E 245 G.H3.04
Van-der-waals H8 S 297 8x47 G.H5 F 354 G.H5.26
Hydrophobic ICL2 L 129 34x51 G.H5 F 336 G.H5.08
Van-der-waals ICL2 L 129 34x51 G.H5 F 336 G.H5.08
Hydrophobic C-term F 326 - G.hns1 A 31 G.hns1.02
Van-der-waals C-term F 326 - G.hns1 A 31 G.hns1.02
Van-der-waals TM4 R 136 4x38 G.HN Q 24 G.HN.48
Hydrophobic ICL3 A 226 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 A 226 - G.H5 D 341 G.H5.13
Ionic H8 R 298 8x48 G.h4s6 E 315 G.h4s6.09
Polar H8 R 298 8x48 G.h4s6 E 315 G.h4s6.09
Van-der-waals H8 R 298 8x48 G.h4s6 E 315 G.h4s6.09
Hydrophobic C-term L 325 - G.H5 E 346 G.H5.18
Van-der-waals C-term L 325 - G.H5 E 346 G.H5.18
Hydrophobic C-term L 325 - G.h2s4 G 217 G.h2s4.03
Polar C-term R 321 - G.H3 F 259 G.H3.18
Hydrophobic C-term R 321 - G.H3 F 259 G.H3.18
Van-der-waals C-term R 321 - G.H3 F 259 G.H3.18
Hydrophobic TM6 R 234 6x33 G.H5 F 354 G.H5.26
Van-der-waals TM6 R 234 6x33 G.H5 F 354 G.H5.26
Hydrophobic ICL3 H 227 - G.H5 I 344 G.H5.16
Hydrophobic C-term R 354 - G.H2 R 205 G.H2.01
Van-der-waals C-term R 354 - G.H2 R 205 G.H2.01
Hydrophobic TM6 A 239 6x38 G.H5 L 353 G.H5.25
Polar C-term S 324 - G.h2s4 G 217 G.h2s4.03
Hydrophobic C-term S 324 - G.h2s4 G 217 G.h2s4.03
Van-der-waals C-term S 324 - G.h2s4 G 217 G.h2s4.03
Hydrophobic TM3 V 125 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 V 125 3x54 G.H5 L 348 G.H5.20
Polar ICL2 P 128 34x50 G.H5 N 347 G.H5.19
Hydrophobic ICL2 P 128 34x50 G.H5 T 340 G.H5.12
Hydrophobic C-term R 354 - G.s4h3 V 240 G.s4h3.14
Van-der-waals C-term R 354 - G.s4h3 V 240 G.s4h3.14
Hydrophobic ICL3 A 226 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 A 226 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 L 129 34x51 G.S3 L 194 G.S3.01
Van-der-waals ICL2 L 129 34x51 G.S3 L 194 G.S3.01
Polar TM2 S 58 2x39 G.H5 D 350 G.H5.22
Hydrophobic TM2 S 58 2x39 G.H5 D 350 G.H5.22
Van-der-waals TM2 S 58 2x39 G.H5 D 350 G.H5.22
Hydrophobic ICL2 P 128 34x50 G.H5 I 344 G.H5.16
Hydrophobic C-term L 352 - G.H3 H 248 G.H3.07
Polar TM2 S 58 2x39 G.H5 C 351 G.H5.23
Hydrophobic TM2 S 58 2x39 G.H5 C 351 G.H5.23
Van-der-waals TM2 S 58 2x39 G.H5 C 351 G.H5.23
Hydrophobic H8 S 297 8x47 G.H5 G 352 G.H5.24
Ionic ICL2 R 135 34x57 G.H5 D 350 G.H5.22
Polar TM6 G 228 6x27 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 G 228 6x27 G.h4s6 E 318 G.h4s6.12
Polar TM3 R 121 3x50 G.H5 G 352 G.H5.24
Polar TM3 G 124 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 G 124 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 G 124 3x53 G.H5 N 347 G.H5.19
Aromatic C-term F 359 - G.H3 H 256 G.H3.15
Hydrophobic C-term F 359 - G.H3 H 256 G.H3.15
Van-der-waals C-term F 359 - G.H3 H 256 G.H3.15
Hydrophobic C-term L 325 - G.h2s4 T 219 G.h2s4.05
Van-der-waals C-term L 325 - G.h2s4 T 219 G.h2s4.05
Hydrophobic C-term F 359 - G.H2 I 212 G.H2.08
Van-der-waals C-term F 359 - G.H2 I 212 G.H2.08
Aromatic C-term F 359 - G.h2s4 F 215 G.h2s4.01
Hydrophobic C-term F 359 - G.h2s4 F 215 G.h2s4.01
Van-der-waals C-term F 359 - G.h2s4 F 215 G.h2s4.01
Polar C-term R 321 - G.h3s5 S 260 G.h3s5.01
Van-der-waals C-term R 321 - G.h3s5 S 260 G.h3s5.01
Ionic TM4 R 136 4x38 G.HN E 28 G.HN.52
Polar TM4 R 136 4x38 G.HN E 28 G.HN.52
Hydrophobic TM4 R 136 4x38 G.HN E 28 G.HN.52
Van-der-waals TM4 R 136 4x38 G.HN E 28 G.HN.52
Polar ICL3 H 227 - G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL3 H 227 - G.h4s6 E 318 G.h4s6.12
Van-der-waals ICL3 H 227 - G.h4s6 E 318 G.h4s6.12
Hydrophobic C-term F 326 - G.hns1 D 30 G.hns1.01
Van-der-waals C-term F 326 - G.hns1 D 30 G.hns1.01
Hydrophobic TM3 R 121 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 121 3x50 G.H5 L 353 G.H5.25
Polar C-term R 321 - G.h3s5 T 262 G.h3s5.03
Hydrophobic C-term R 321 - G.h3s5 T 262 G.h3s5.03
Van-der-waals C-term R 321 - G.h3s5 T 262 G.h3s5.03
Polar C-term A 328 - G.hns1 D 30 G.hns1.01
Hydrophobic TM5 L 220 5x65 G.H5 L 348 G.H5.20
Ionic C-term R 322 - G.H5 D 350 G.H5.22
Polar C-term R 322 - G.H5 D 350 G.H5.22
Hydrophobic C-term R 322 - G.H5 D 350 G.H5.22
Van-der-waals C-term R 322 - G.H5 D 350 G.H5.22
Hydrophobic ICL2 L 129 34x51 G.H5 I 343 G.H5.15
Van-der-waals ICL2 L 129 34x51 G.H5 I 343 G.H5.15
Polar ICL2 K 132 34x54 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 K 132 34x54 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 K 132 34x54 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 P 128 34x50 G.H5 I 343 G.H5.15
Van-der-waals ICL2 P 128 34x50 G.H5 I 343 G.H5.15
Polar TM2 S 56 2x37 G.H5 D 350 G.H5.22
Ionic C-term R 354 - G.s4h3 D 237 G.s4h3.11
Polar C-term R 354 - G.s4h3 D 237 G.s4h3.11
Van-der-waals C-term R 354 - G.s4h3 D 237 G.s4h3.11
Ionic ICL3 H 227 - G.H5 D 341 G.H5.13
Polar ICL3 H 227 - G.H5 D 341 G.H5.13
Hydrophobic ICL3 H 227 - G.H5 D 341 G.H5.13
Van-der-waals ICL3 H 227 - G.H5 D 341 G.H5.13