G13 - S1P4 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

(pLDDT score) avg.: 77.9

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

PTM Score: 0.6
iPTM Score: 0.5
PAE mean: 19.9


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 - G.s4h3 Q 254 G.s4h3.06
Hydrophobic C-term S 383 - H.hdhe L 170 H.hdhe.03
Hydrophobic TM6 L 249 6x33 G.H5 M 375 G.H5.24
Van-der-waals TM6 L 249 6x33 G.H5 M 375 G.H5.24
Polar C-term R 372 - G.HG D 307 G.HG.17
Van-der-waals C-term R 372 - G.HG D 307 G.HG.17
Hydrophobic C-term V 381 - H.HB M 123 H.HB.10
Hydrophobic TM6 K 245 6x29 G.H5 M 375 G.H5.24
Hydrophobic C-term F 361 - G.H3 I 275 G.H3.12
Van-der-waals C-term F 361 - G.H3 I 275 G.H3.12
Hydrophobic C-term S 377 - G.s4h3 V 255 G.s4h3.07
Van-der-waals C-term S 377 - G.s4h3 V 255 G.s4h3.07
Hydrophobic TM6 K 245 6x29 G.H5 K 372 G.H5.21
Van-der-waals TM6 K 245 6x29 G.H5 K 372 G.H5.21
Polar C-term S 380 - H.HA K 105 H.HA.28
Hydrophobic C-term S 380 - H.HA K 105 H.HA.28
Van-der-waals C-term S 380 - H.HA K 105 H.HA.28
Hydrophobic TM6 R 248 6x32 G.H5 M 375 G.H5.24
Van-der-waals TM6 R 248 6x32 G.H5 M 375 G.H5.24
Hydrophobic C-term R 370 - G.hgh4 L 310 G.hgh4.03
Van-der-waals C-term R 370 - G.hgh4 L 310 G.hgh4.03
Polar ICL2 A 152 34x52 G.hns1 R 47 G.hns1.03
Hydrophobic ICL2 A 152 34x52 G.hns1 R 47 G.hns1.03
Van-der-waals ICL2 A 152 34x52 G.hns1 R 47 G.hns1.03
Polar TM2 W 80 2x38 G.H5 Q 373 G.H5.22
Van-der-waals TM2 W 80 2x38 G.H5 Q 373 G.H5.22
Hydrophobic ICL2 G 155 34x55 G.hns1 K 46 G.hns1.02
Polar C-term S 377 - H.hdhe Q 169 H.hdhe.02
Hydrophobic C-term S 377 - H.hdhe Q 169 H.hdhe.02
Van-der-waals C-term S 377 - H.hdhe Q 169 H.hdhe.02
Van-der-waals C-term L 367 - G.h4s6 K 333 G.h4s6.01
Hydrophobic TM5 S 233 5x68 G.H5 D 364 G.H5.13
Van-der-waals TM5 S 233 5x68 G.H5 D 364 G.H5.13
Hydrophobic C-term S 377 - H.HD E 167 H.HD.12
Van-der-waals C-term S 377 - H.HD E 167 H.HD.12
Hydrophobic C-term F 361 - G.H3 T 274 G.H3.11
Hydrophobic C-term R 358 - G.H2 F 234 G.H2.08
Hydrophobic C-term R 382 - H.HA V 98 H.HA.21
Hydrophobic C-term S 383 - H.HA V 98 H.HA.21
Van-der-waals C-term S 383 - H.HA V 98 H.HA.21
Polar H8 E 313 8x49 G.H5 L 376 G.H5.25
Hydrophobic TM3 M 147 3x54 G.H5 L 371 G.H5.20
Van-der-waals TM3 M 147 3x54 G.H5 L 371 G.H5.20
Polar C-term S 383 - H.hdhe G 171 H.hdhe.04
Hydrophobic ICL2 P 150 34x50 G.H5 I 366 G.H5.15
Van-der-waals ICL2 P 150 34x50 G.H5 I 366 G.H5.15
Ionic ICL2 E 153 34x53 G.hns1 R 47 G.hns1.03
Polar TM6 K 245 6x29 G.H5 H 368 G.H5.17
Hydrophobic TM6 K 245 6x29 G.H5 H 368 G.H5.17
Van-der-waals TM6 K 245 6x29 G.H5 H 368 G.H5.17
Polar C-term E 373 - G.HG D 307 G.HG.17
Polar C-term S 379 - G.s4h3 R 260 G.s4h3.12
Hydrophobic C-term S 379 - G.s4h3 R 260 G.s4h3.12
Van-der-waals C-term S 379 - G.s4h3 R 260 G.s4h3.12
Hydrophobic C-term F 369 - G.H3 L 269 G.H3.06
Van-der-waals C-term F 369 - G.H3 L 269 G.H3.06
Polar C-term S 377 - G.s4h3 R 260 G.s4h3.12
Hydrophobic C-term S 377 - G.s4h3 R 260 G.s4h3.12
Aromatic C-term F 369 - G.hgh4 F 309 G.hgh4.02
Hydrophobic C-term F 369 - G.hgh4 F 309 G.hgh4.02
Van-der-waals C-term F 369 - G.hgh4 F 309 G.hgh4.02
Hydrophobic C-term S 379 - H.HA V 98 H.HA.21
Hydrophobic C-term I 378 - H.HA L 106 H.HA.29
Van-der-waals C-term I 378 - H.HA L 106 H.HA.29
Hydrophobic TM2 Y 82 2x40 G.H5 L 376 G.H5.25
Van-der-waals TM2 Y 82 2x40 G.H5 L 376 G.H5.25
Hydrophobic C-term I 384 - H.HA K 94 H.HA.17
Van-der-waals C-term I 384 - H.HA K 94 H.HA.17
Hydrophobic TM2 V 81 2x39 G.H5 Q 373 G.H5.22
Polar TM3 R 143 3x50 G.H5 L 374 G.H5.23
Hydrophobic TM3 R 143 3x50 G.H5 L 374 G.H5.23
Van-der-waals TM3 R 143 3x50 G.H5 L 374 G.H5.23
Hydrophobic C-term S 383 - H.HA K 94 H.HA.17
Van-der-waals C-term S 383 - H.HA K 94 H.HA.17
Hydrophobic ICL2 E 153 34x53 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 E 153 34x53 G.hns1 K 46 G.hns1.02
Hydrophobic TM2 L 85 2x43 G.H5 L 376 G.H5.25
Van-der-waals TM2 L 85 2x43 G.H5 L 376 G.H5.25
Hydrophobic ICL2 A 152 34x52 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 A 152 34x52 G.hns1 K 46 G.hns1.02
Hydrophobic C-term M 371 - G.H3 T 266 G.H3.03
Van-der-waals C-term M 371 - G.H3 T 266 G.H3.03
Hydrophobic ICL2 V 151 34x51 G.hns1 R 47 G.hns1.03
Van-der-waals ICL2 V 151 34x51 G.hns1 R 47 G.hns1.03
Hydrophobic C-term R 382 - G.s4h3 M 257 G.s4h3.09
Van-der-waals C-term R 382 - G.s4h3 M 257 G.s4h3.09
Hydrophobic C-term I 384 - G.hfs2 R 200 G.hfs2.02
Van-der-waals C-term I 384 - G.hfs2 R 200 G.hfs2.02
Hydrophobic C-term I 384 - G.hfs2 P 202 G.hfs2.04
Van-der-waals C-term I 384 - G.hfs2 P 202 G.hfs2.04
Polar C-term S 380 - G.s4h3 R 260 G.s4h3.12
Hydrophobic C-term S 380 - G.s4h3 R 260 G.s4h3.12
Van-der-waals C-term S 380 - G.s4h3 R 260 G.s4h3.12
Hydrophobic C-term S 376 - G.s4h3 V 255 G.s4h3.07
Hydrophobic ICL2 V 151 34x51 G.S3 V 216 G.S3.01
Van-der-waals ICL2 V 151 34x51 G.S3 V 216 G.S3.01
Polar C-term I 378 - H.HA K 105 H.HA.28
Hydrophobic C-term I 378 - H.HA K 105 H.HA.28
Van-der-waals C-term I 378 - H.HA K 105 H.HA.28
Polar C-term I 378 - H.HD E 167 H.HD.12
Hydrophobic C-term I 378 - H.HD E 167 H.HD.12
Van-der-waals C-term I 378 - H.HD E 167 H.HD.12
Polar C-term S 380 - H.HA D 101 H.HA.24
Van-der-waals C-term S 380 - H.HA D 101 H.HA.24
Hydrophobic C-term F 361 - G.H2 W 233 G.H2.07
Hydrophobic TM5 V 230 5x65 G.H5 L 371 G.H5.20
Van-der-waals TM5 V 230 5x65 G.H5 L 371 G.H5.20
Hydrophobic C-term V 381 - H.HA V 98 H.HA.21
Van-der-waals C-term V 381 - H.HA V 98 H.HA.21
Hydrophobic C-term I 384 - H.hdhe G 171 H.hdhe.04
Polar ICL2 S 154 34x54 G.hns1 K 46 G.hns1.02
Hydrophobic ICL2 S 154 34x54 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 S 154 34x54 G.hns1 K 46 G.hns1.02
Polar ICL2 T 157 34x57 G.HN T 43 G.HN.52
Hydrophobic C-term I 384 - G.s1h1 E 58 G.s1h1.04
Polar C-term T 351 - G.H3 R 279 G.H3.16
Van-der-waals C-term T 351 - G.H3 R 279 G.H3.16
Hydrophobic C-term L 375 - G.hgh4 Y 308 G.hgh4.01
Van-der-waals C-term L 375 - G.hgh4 Y 308 G.hgh4.01
Hydrophobic ICL2 A 156 34x56 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 A 156 34x56 G.hns1 K 46 G.hns1.02
Hydrophobic C-term F 369 - G.hgh4 E 311 G.hgh4.04
Van-der-waals C-term F 369 - G.hgh4 E 311 G.hgh4.04
Hydrophobic TM3 M 147 3x54 G.H5 L 367 G.H5.16
Van-der-waals TM3 M 147 3x54 G.H5 L 367 G.H5.16
Polar ICL2 T 157 34x57 G.hns1 K 46 G.hns1.02
Hydrophobic ICL2 T 157 34x57 G.hns1 K 46 G.hns1.02
Van-der-waals ICL2 T 157 34x57 G.hns1 K 46 G.hns1.02
Hydrophobic TM2 V 81 2x39 G.H5 L 376 G.H5.25
Van-der-waals TM2 V 81 2x39 G.H5 L 376 G.H5.25
Hydrophobic C-term S 379 - H.hdhe F 168 H.hdhe.01
Van-der-waals C-term S 379 - H.hdhe F 168 H.hdhe.01
Polar H8 R 312 8x48 G.H5 L 376 G.H5.25
Van-der-waals H8 R 312 8x48 G.H5 L 376 G.H5.25
Hydrophobic TM6 L 249 6x33 G.H5 L 371 G.H5.20
Van-der-waals TM6 L 249 6x33 G.H5 L 371 G.H5.20
Hydrophobic H8 V 314 8x50 G.H5 L 376 G.H5.25
Hydrophobic TM5 L 229 5x64 G.H5 L 367 G.H5.16
Polar H8 S 311 8x47 G.H5 M 375 G.H5.24
Hydrophobic C-term R 372 - G.hgh4 L 310 G.hgh4.03
Polar C-term V 381 - H.HA D 101 H.HA.24
Hydrophobic C-term V 381 - H.HA D 101 H.HA.24
Van-der-waals C-term V 381 - H.HA D 101 H.HA.24
Aromatic TM6 R 239 6x23 G.S6 Y 343 G.S6.02
Hydrophobic TM5 V 230 5x65 G.H5 L 367 G.H5.16
Hydrophobic TM2 W 80 2x38 G.H5 L 374 G.H5.23
Hydrophobic C-term L 375 - G.s4h3 N 263 G.s4h3.15
Van-der-waals C-term L 375 - G.s4h3 N 263 G.s4h3.15
Polar C-term S 379 - H.HA D 101 H.HA.24
Van-der-waals C-term S 379 - H.HA D 101 H.HA.24
Hydrophobic C-term S 360 - G.H3 T 274 G.H3.11
Polar H8 S 311 8x47 G.H5 L 376 G.H5.25
Hydrophobic H8 S 311 8x47 G.H5 L 376 G.H5.25
Van-der-waals H8 S 311 8x47 G.H5 L 376 G.H5.25
Hydrophobic ICL3 K 236 - G.H5 R 360 G.H5.09
Hydrophobic C-term V 381 - H.HA R 97 H.HA.20
Polar C-term S 383 - H.hdhe Q 169 H.hdhe.02
Hydrophobic C-term S 383 - H.hdhe Q 169 H.hdhe.02
Van-der-waals C-term S 383 - H.hdhe Q 169 H.hdhe.02
Hydrophobic TM3 M 147 3x54 G.H5 L 374 G.H5.23
Van-der-waals TM3 M 147 3x54 G.H5 L 374 G.H5.23
Polar C-term S 360 - G.H3 N 278 G.H3.15
Van-der-waals C-term S 360 - G.H3 N 278 G.H3.15
Polar TM3 T 146 3x53 G.H5 N 370 G.H5.19
Hydrophobic TM3 T 146 3x53 G.H5 N 370 G.H5.19
Van-der-waals TM3 T 146 3x53 G.H5 N 370 G.H5.19
Hydrophobic ICL2 P 150 34x50 G.H5 K 363 G.H5.12
Hydrophobic TM3 M 147 3x54 G.H5 N 370 G.H5.19
Hydrophobic C-term F 361 - G.h2s4 F 237 G.h2s4.01
Van-der-waals C-term F 361 - G.h2s4 F 237 G.h2s4.01
Hydrophobic C-term S 377 - H.hdhe F 168 H.hdhe.01
Hydrophobic C-term L 375 - G.s4h3 D 253 G.s4h3.05
Van-der-waals C-term L 375 - G.s4h3 D 253 G.s4h3.05
Hydrophobic C-term M 371 - G.s4h3 N 263 G.s4h3.15
Van-der-waals C-term M 371 - G.s4h3 N 263 G.s4h3.15
Polar TM6 R 239 6x23 G.S6 L 342 G.S6.01
Hydrophobic TM6 R 239 6x23 G.S6 L 342 G.S6.01
Van-der-waals TM6 R 239 6x23 G.S6 L 342 G.S6.01
Hydrophobic C-term L 375 - G.s4h3 V 255 G.s4h3.07
Van-der-waals C-term L 375 - G.s4h3 V 255 G.s4h3.07
Hydrophobic C-term F 369 - G.H3 T 266 G.H3.03
Hydrophobic TM6 R 239 6x23 G.h4s6 P 341 G.h4s6.20
Van-der-waals TM6 R 239 6x23 G.h4s6 P 341 G.h4s6.20
Van-der-waals TM7 R 310 7x56 G.H5 M 375 G.H5.24