Go - S1P4 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.: 80.5

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

PTM Score: 0.7
iPTM Score: 0.7
PAE mean: 14.1


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
Hydrophobic C-term L 375 - H.HA Y 69 H.HA.07
Ionic TM6 K 245 6x29 G.H5 D 341 G.H5.13
Polar TM6 K 245 6x29 G.H5 D 341 G.H5.13
Van-der-waals TM6 K 245 6x29 G.H5 D 341 G.H5.13
Ionic ICL3 K 236 - G.H5 D 337 G.H5.09
Polar ICL3 K 236 - G.H5 D 337 G.H5.09
Hydrophobic ICL3 K 236 - G.H5 D 337 G.H5.09
Van-der-waals ICL3 K 236 - G.H5 D 337 G.H5.09
Hydrophobic C-term L 375 - G.hfs2 V 180 G.hfs2.03
Hydrophobic C-term I 378 - G.hfs2 K 181 G.hfs2.04
Aromatic TM6 R 248 6x32 G.H5 Y 354 G.H5.26
Polar H8 R 312 8x48 G.h4s6 N 316 G.h4s6.10
Van-der-waals H8 R 312 8x48 G.h4s6 N 316 G.h4s6.10
Hydrophobic C-term V 381 - H.HA R 86 H.HA.24
Van-der-waals C-term V 381 - H.HA R 86 H.HA.24
Hydrophobic TM2 W 80 2x38 G.H5 C 351 G.H5.23
Van-der-waals TM2 W 80 2x38 G.H5 C 351 G.H5.23
Hydrophobic C-term V 381 - H.HB V 111 H.HB.13
Hydrophobic ICL2 P 150 34x50 G.S3 L 195 G.S3.01
Hydrophobic ICL2 V 151 34x51 G.hns1 K 32 G.hns1.03
Van-der-waals ICL2 V 151 34x51 G.hns1 K 32 G.hns1.03
Polar TM5 S 233 5x68 G.H5 D 341 G.H5.13
Polar TM3 T 146 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 T 146 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 T 146 3x53 G.H5 N 347 G.H5.19
Polar TM6 R 239 6x23 G.S6 I 319 G.S6.01
Hydrophobic TM2 V 81 2x39 G.H5 C 351 G.H5.23
Hydrophobic ICL2 V 151 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 V 151 34x51 G.S3 L 195 G.S3.01
Hydrophobic TM6 K 245 6x29 G.H5 A 345 G.H5.17
Van-der-waals TM6 K 245 6x29 G.H5 A 345 G.H5.17
Hydrophobic TM3 M 147 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 M 147 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM6 K 245 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 K 245 6x29 G.H5 Y 354 G.H5.26
Van-der-waals C-term S 377 - H.hbhc T 117 H.hbhc.05
Hydrophobic C-term I 378 - G.hfs2 T 183 G.hfs2.06
Van-der-waals C-term I 378 - G.hfs2 T 183 G.hfs2.06
Hydrophobic TM2 V 81 2x39 G.H5 G 350 G.H5.22
Van-der-waals TM2 V 81 2x39 G.H5 G 350 G.H5.22
Hydrophobic H8 S 311 8x47 G.H5 G 352 G.H5.24
Polar TM6 R 239 6x23 G.S6 H 322 G.S6.04
Van-der-waals TM6 R 239 6x23 G.S6 H 322 G.S6.04
Polar TM6 K 245 6x29 G.S6 Y 320 G.S6.02
Van-der-waals TM6 K 245 6x29 G.S6 Y 320 G.S6.02
Hydrophobic TM6 L 249 6x33 G.H5 L 348 G.H5.20
Hydrophobic ICL2 A 156 34x56 G.HN K 24 G.HN.48
Hydrophobic C-term V 381 - H.HA Q 79 H.HA.17
Van-der-waals C-term V 381 - H.HA Q 79 H.HA.17
Polar ICL2 P 150 34x50 G.H5 N 347 G.H5.19
Hydrophobic ICL2 S 154 34x54 G.HN I 28 G.HN.52
Van-der-waals ICL2 S 154 34x54 G.HN I 28 G.HN.52
Polar TM6 T 252 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM6 T 252 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM5 S 233 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 S 233 5x68 G.H5 I 344 G.H5.16
Hydrophobic TM5 V 230 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM3 M 147 3x54 G.H5 I 344 G.H5.16
Polar C-term S 377 - H.HA S 75 H.HA.13
Hydrophobic C-term S 377 - H.HA S 75 H.HA.13
Hydrophobic TM6 L 249 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM3 T 146 3x53 G.H5 C 351 G.H5.23
Van-der-waals TM3 T 146 3x53 G.H5 C 351 G.H5.23
Hydrophobic TM6 R 239 6x23 G.S6 Y 320 G.S6.02
Van-der-waals TM6 R 239 6x23 G.S6 Y 320 G.S6.02
Ionic TM6 K 245 6x29 G.h4s6 E 318 G.h4s6.12
Polar TM6 K 245 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM6 K 245 6x29 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 K 245 6x29 G.h4s6 E 318 G.h4s6.12
Hydrophobic TM3 R 143 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 143 3x50 G.H5 L 353 G.H5.25
Polar TM6 R 239 6x23 G.S6 C 321 G.S6.03
Polar ICL2 A 152 34x52 G.hns1 A 31 G.hns1.02
Hydrophobic ICL2 A 152 34x52 G.hns1 A 31 G.hns1.02
Van-der-waals ICL2 A 152 34x52 G.hns1 A 31 G.hns1.02
Hydrophobic TM5 V 230 5x65 G.H5 I 344 G.H5.16
Polar TM3 R 143 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 143 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 143 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 M 147 3x54 G.H5 N 347 G.H5.19
Van-der-waals TM3 M 147 3x54 G.H5 N 347 G.H5.19
Hydrophobic TM5 Y 223 5x58 G.H5 L 353 G.H5.25
Hydrophobic ICL2 V 151 34x51 G.hns1 A 31 G.hns1.02
Polar TM7 R 310 7x56 G.H5 L 353 G.H5.25
Hydrophobic C-term L 375 - H.HA Q 68 H.HA.06
Hydrophobic C-term S 379 - H.HA Q 79 H.HA.17
Hydrophobic TM6 A 241 6x25 G.h4s6 E 318 G.h4s6.12
Van-der-waals TM6 A 241 6x25 G.h4s6 E 318 G.h4s6.12
Hydrophobic ICL2 P 150 34x50 G.H5 I 343 G.H5.15
Van-der-waals ICL2 P 150 34x50 G.H5 I 343 G.H5.15