Gz - P2Y13 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.: 80.6

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

PTM Score: 0.6
iPTM Score: 0.4
PAE mean: 19.1


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 TM5 S 238 5x68 G.H5 Q 346 G.H5.17
Hydrophobic H8 K 322 8x48 G.H5 L 354 G.H5.25
Van-der-waals H8 K 322 8x48 G.H5 L 354 G.H5.25
Hydrophobic TM6 S 244 6x25 G.h4s6 E 319 G.h4s6.12
Hydrophobic TM3 I 145 3x54 G.H5 I 345 G.H5.16
Van-der-waals TM3 I 145 3x54 G.H5 I 345 G.H5.16
Polar TM7 L 320 7x56 G.H5 L 354 G.H5.25
Hydrophobic TM7 L 320 7x56 G.H5 L 354 G.H5.25
Van-der-waals TM7 L 320 7x56 G.H5 L 354 G.H5.25
Polar TM3 R 141 3x50 G.H5 I 352 G.H5.23
Hydrophobic TM3 R 141 3x50 G.H5 I 352 G.H5.23
Van-der-waals TM3 R 141 3x50 G.H5 I 352 G.H5.23
Polar H8 K 323 8x49 G.H5 C 355 G.H5.26
Hydrophobic H8 K 323 8x49 G.H5 C 355 G.H5.26
Van-der-waals H8 K 323 8x49 G.H5 C 355 G.H5.26
Hydrophobic TM2 L 82 2x43 G.H5 C 355 G.H5.26
Van-der-waals TM2 L 82 2x43 G.H5 C 355 G.H5.26
Hydrophobic C-term T 348 - G.H3 N 258 G.H3.16
Van-der-waals C-term T 348 - G.H3 N 258 G.H3.16
Hydrophobic C-term L 353 - G.H2 R 209 G.H2.04
Van-der-waals C-term L 353 - G.H2 R 209 G.H2.04
Ionic ICL2 R 150 34x52 G.s2s3 E 194 G.s2s3.02
Polar ICL2 R 150 34x52 G.s2s3 E 194 G.s2s3.02
Hydrophobic ICL2 R 150 34x52 G.s2s3 E 194 G.s2s3.02
Van-der-waals ICL2 R 150 34x52 G.s2s3 E 194 G.s2s3.02
Van-der-waals TM2 F 78 2x39 G.H5 I 352 G.H5.23
Hydrophobic TM6 D 246 6x27 G.h4s6 K 315 G.h4s6.08
Van-der-waals TM6 D 246 6x27 G.h4s6 K 315 G.h4s6.08
Hydrophobic H8 C 321 8x47 G.H5 L 354 G.H5.25
Van-der-waals TM7 L 320 7x56 G.H5 I 352 G.H5.23
Polar TM6 N 249 6x30 G.h4s6 E 316 G.h4s6.09
Hydrophobic TM6 N 249 6x30 G.h4s6 E 316 G.h4s6.09
Van-der-waals TM6 N 249 6x30 G.h4s6 E 316 G.h4s6.09
Polar C-term N 350 - G.H3 N 257 G.H3.15
Hydrophobic C-term N 350 - G.H3 N 257 G.H3.15
Van-der-waals C-term N 350 - G.H3 N 257 G.H3.15
Polar H8 C 321 8x47 G.H5 C 355 G.H5.26
Hydrophobic H8 C 321 8x47 G.H5 C 355 G.H5.26
Van-der-waals H8 C 321 8x47 G.H5 C 355 G.H5.26
Hydrophobic ICL2 L 149 34x51 G.S1 I 34 G.S1.02
Van-der-waals ICL2 L 149 34x51 G.S1 I 34 G.S1.02
Hydrophobic C-term I 351 - G.H2 I 213 G.H2.08
Van-der-waals C-term I 351 - G.H2 I 213 G.H2.08
Hydrophobic ICL2 P 148 34x50 G.H5 I 345 G.H5.16
Hydrophobic ICL2 P 148 34x50 G.H5 I 344 G.H5.15
Van-der-waals ICL2 P 148 34x50 G.H5 I 344 G.H5.15
Hydrophobic TM5 S 238 5x68 G.H5 D 342 G.H5.13
Polar TM5 Y 239 5x69 G.H5 Q 346 G.H5.17
Hydrophobic TM5 Y 239 5x69 G.H5 Q 346 G.H5.17
Van-der-waals TM5 Y 239 5x69 G.H5 Q 346 G.H5.17
Hydrophobic ICL2 L 149 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 L 149 34x51 G.S3 L 195 G.S3.01
Hydrophobic TM6 L 253 6x34 G.H5 K 350 G.H5.21
Van-der-waals TM6 L 253 6x34 G.H5 K 350 G.H5.21
Van-der-waals H8 K 322 8x48 G.H5 C 355 G.H5.26
Hydrophobic C-term L 353 - G.h2s4 F 216 G.h2s4.01
Van-der-waals ICL3 S 242 - G.S6 I 320 G.S6.01
Polar H8 C 321 8x47 G.H5 G 353 G.H5.24
Hydrophobic H8 C 321 8x47 G.H5 G 353 G.H5.24
Van-der-waals H8 C 321 8x47 G.H5 G 353 G.H5.24
Hydrophobic C-term G 354 - G.H2 R 206 G.H2.01
Van-der-waals C-term G 354 - G.H2 R 206 G.H2.01
Hydrophobic TM3 I 145 3x54 G.H5 L 349 G.H5.20
Van-der-waals TM3 I 145 3x54 G.H5 L 349 G.H5.20
Hydrophobic ICL2 L 149 34x51 G.H5 F 337 G.H5.08
Van-der-waals ICL2 L 149 34x51 G.H5 F 337 G.H5.08
Polar C-term G 354 - G.H2 R 209 G.H2.04
Hydrophobic C-term G 354 - G.H2 R 209 G.H2.04
Van-der-waals C-term G 354 - G.H2 R 209 G.H2.04
Hydrophobic TM2 I 79 2x40 G.H5 C 355 G.H5.26
Van-der-waals TM2 I 79 2x40 G.H5 C 355 G.H5.26
Hydrophobic ICL2 L 149 34x51 G.H5 T 341 G.H5.12
Van-der-waals ICL2 L 149 34x51 G.H5 T 341 G.H5.12
Hydrophobic C-term N 350 - G.H3 W 259 G.H3.17
Van-der-waals C-term N 350 - G.H3 W 259 G.H3.17
Polar TM6 S 244 6x25 G.h4s6 K 315 G.h4s6.08
Hydrophobic TM5 Y 239 5x69 G.h4s6 E 319 G.h4s6.12
Van-der-waals TM5 Y 239 5x69 G.h4s6 E 319 G.h4s6.12
Polar C-term T 352 - G.H3 S 253 G.H3.11
Van-der-waals C-term T 352 - G.H3 S 253 G.H3.11
Polar TM6 K 243 6x24 G.H4 Q 305 G.H4.12
Hydrophobic TM6 K 243 6x24 G.H4 Q 305 G.H4.12
Van-der-waals TM6 K 243 6x24 G.H4 Q 305 G.H4.12
Hydrophobic C-term L 353 - G.H3 I 254 G.H3.12
Van-der-waals C-term L 353 - G.H3 I 254 G.H3.12
Hydrophobic TM6 V 257 6x38 G.H5 L 349 G.H5.20
Van-der-waals TM6 V 257 6x38 G.H5 L 349 G.H5.20
Polar TM7 L 320 7x56 G.H5 G 353 G.H5.24
Hydrophobic TM7 L 320 7x56 G.H5 G 353 G.H5.24
Van-der-waals TM7 L 320 7x56 G.H5 G 353 G.H5.24
Hydrophobic TM5 V 235 5x65 G.H5 L 349 G.H5.20
Van-der-waals TM5 V 235 5x65 G.H5 L 349 G.H5.20
Polar H8 K 322 8x48 G.H5 G 353 G.H5.24
Hydrophobic TM2 F 78 2x39 G.H5 C 355 G.H5.26
Van-der-waals TM2 F 78 2x39 G.H5 C 355 G.H5.26
Ionic ICL3 K 241 - G.H5 D 342 G.H5.13
Polar ICL3 K 241 - G.H5 D 342 G.H5.13
Hydrophobic ICL3 K 241 - G.H5 D 342 G.H5.13
Van-der-waals ICL3 K 241 - G.H5 D 342 G.H5.13
Hydrophobic ICL2 L 149 34x51 G.H5 I 344 G.H5.15
Van-der-waals ICL2 L 149 34x51 G.H5 I 344 G.H5.15
Polar ICL3 S 242 - G.h4s6 E 319 G.h4s6.12
Hydrophobic ICL3 S 242 - G.h4s6 E 319 G.h4s6.12
Van-der-waals ICL3 S 242 - G.h4s6 E 319 G.h4s6.12
Hydrophobic C-term L 353 - G.H2 W 212 G.H2.07
Van-der-waals C-term L 353 - G.H2 W 212 G.H2.07
Hydrophobic ICL2 P 148 34x50 G.H5 T 341 G.H5.12
Hydrophobic ICL3 S 242 - G.S6 Y 321 G.S6.02
Van-der-waals ICL3 S 242 - G.S6 Y 321 G.S6.02
Hydrophobic TM6 L 253 6x34 G.H5 L 349 G.H5.20
Polar TM3 K 144 3x53 G.H5 N 348 G.H5.19
Hydrophobic TM3 K 144 3x53 G.H5 N 348 G.H5.19
Van-der-waals TM3 K 144 3x53 G.H5 N 348 G.H5.19
Polar ICL2 N 151 34x53 G.hns1 R 32 G.hns1.03
Hydrophobic ICL2 N 151 34x53 G.hns1 R 32 G.hns1.03
Van-der-waals ICL2 N 151 34x53 G.hns1 R 32 G.hns1.03
Hydrophobic TM3 K 144 3x53 G.H5 I 352 G.H5.23
Polar TM7 L 320 7x56 G.H5 C 355 G.H5.26
Hydrophobic TM7 L 320 7x56 G.H5 C 355 G.H5.26
Van-der-waals TM7 L 320 7x56 G.H5 C 355 G.H5.26
Hydrophobic TM3 I 145 3x54 G.H5 I 352 G.H5.23
Van-der-waals TM3 I 145 3x54 G.H5 I 352 G.H5.23
Polar C-term N 350 - G.H3 N 258 G.H3.16
Hydrophobic C-term N 350 - G.H3 N 258 G.H3.16
Ionic ICL3 K 241 - G.H5 D 338 G.H5.09
Van-der-waals ICL2 P 148 34x50 G.H5 N 348 G.H5.19
Polar TM6 D 246 6x27 G.h4s6 E 316 G.h4s6.09
Hydrophobic TM6 D 246 6x27 G.h4s6 E 316 G.h4s6.09
Van-der-waals TM6 D 246 6x27 G.h4s6 E 316 G.h4s6.09