Go - 5-HT2B 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.: 83.0

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

PTM Score: 0.8
iPTM Score: 0.7
PAE mean: 12.8


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
Hydrophobic TM3 R 153 3x50 G.H5 L 353 G.H5.25
Van-der-waals TM3 R 153 3x50 G.H5 L 353 G.H5.25
Hydrophobic TM6 Q 314 6x25 G.h4s6 E 318 G.h4s6.12
Ionic TM5 K 254 5x75 G.H5 D 337 G.H5.09
Polar TM5 K 254 5x75 G.H5 D 337 G.H5.09
Van-der-waals TM5 K 254 5x75 G.H5 D 337 G.H5.09
Hydrophobic TM7 F 383 7x56 G.H5 G 352 G.H5.24
Van-der-waals TM7 F 383 7x56 G.H5 G 352 G.H5.24
Hydrophobic ICL3 K 311 - G.S6 Y 320 G.S6.02
Van-der-waals ICL3 K 311 - G.S6 Y 320 G.S6.02
Polar ICL2 Q 165 34x55 G.s2s3 N 194 G.s2s3.02
Polar TM6 N 318 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 N 318 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 N 318 6x29 G.H5 Y 354 G.H5.26
Polar ICL3 Q 257 - G.S6 H 322 G.S6.04
Hydrophobic ICL3 Q 257 - G.S6 H 322 G.S6.04
Van-der-waals ICL3 Q 257 - G.S6 H 322 G.S6.04
Hydrophobic TM3 I 157 3x54 G.H5 L 353 G.H5.25
Hydrophobic TM3 A 156 3x53 G.H5 C 351 G.H5.23
Aromatic C-term F 417 - G.H2 R 209 G.H2.04
Hydrophobic C-term F 417 - G.H2 R 209 G.H2.04
Van-der-waals C-term F 417 - G.H2 R 209 G.H2.04
Polar TM6 A 322 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM6 A 322 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 322 6x33 G.H5 L 353 G.H5.25
Hydrophobic C-term F 427 - H.hbhc M 114 H.hbhc.02
Van-der-waals C-term F 427 - H.hbhc M 114 H.hbhc.02
Hydrophobic TM6 V 325 6x36 G.H5 L 353 G.H5.25
Polar C-term S 425 - G.hfs2 K 181 G.hfs2.04
Hydrophobic C-term S 425 - G.hfs2 K 181 G.hfs2.04
Van-der-waals C-term S 425 - G.hfs2 K 181 G.hfs2.04
Ionic ICL3 K 311 - G.H4 E 309 G.H4.16
Polar ICL3 K 311 - G.H4 E 309 G.H4.16
Van-der-waals ICL3 K 311 - G.H4 E 309 G.H4.16
Hydrophobic C-term F 417 - G.H3 L 250 G.H3.08
Van-der-waals C-term F 417 - G.H3 L 250 G.H3.08
Van-der-waals ICL3 T 260 - G.H4 A 302 G.H4.08
Polar C-term N 424 - H.HA Q 79 H.HA.17
Hydrophobic C-term N 424 - H.HA Q 79 H.HA.17
Van-der-waals C-term N 424 - H.HA Q 79 H.HA.17
Polar TM6 N 318 6x29 G.h4s6 E 318 G.h4s6.12
Polar TM3 A 156 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM6 L 326 6x37 G.H5 L 353 G.H5.25
Polar ICL3 T 260 - G.H4 E 298 G.H4.04
Hydrophobic ICL3 T 260 - G.H4 E 298 G.H4.04
Hydrophobic ICL2 I 161 34x51 G.H5 T 340 G.H5.12
Hydrophobic C-term Y 416 - G.H2 E 208 G.H2.03
Hydrophobic ICL2 I 161 34x51 G.H5 F 336 G.H5.08
Hydrophobic ICL3 L 259 - G.H4 A 301 G.H4.07
Hydrophobic C-term F 428 - H.hbhc T 117 H.hbhc.05
Hydrophobic ICL3 S 306 - G.H4 Q 305 G.H4.12
Hydrophobic TM6 T 315 6x26 G.H5 D 341 G.H5.13
Hydrophobic TM3 I 157 3x54 G.H5 L 348 G.H5.20
Hydrophobic C-term M 421 - G.hfs2 R 179 G.hfs2.02
Van-der-waals C-term M 421 - G.hfs2 R 179 G.hfs2.02
Hydrophobic TM5 K 247 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 K 247 5x68 G.H5 I 344 G.H5.16
Polar ICL3 T 307 - G.H4 E 309 G.H4.16
Hydrophobic ICL3 T 307 - G.H4 E 309 G.H4.16
Van-der-waals ICL3 T 307 - G.H4 E 309 G.H4.16
Hydrophobic TM6 R 321 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 321 6x32 G.H5 Y 354 G.H5.26
Hydrophobic C-term P 420 - G.s4h3 E 237 G.s4h3.10
Van-der-waals C-term P 420 - G.s4h3 E 237 G.s4h3.10
Polar TM3 R 153 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 153 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 153 3x50 G.H5 C 351 G.H5.23
Hydrophobic ICL2 P 160 34x50 G.H5 T 340 G.H5.12
Hydrophobic ICL2 P 160 34x50 G.H5 I 344 G.H5.16
Van-der-waals ICL2 P 160 34x50 G.H5 I 344 G.H5.16
Polar ICL2 P 160 34x50 G.H5 N 347 G.H5.19
Van-der-waals ICL2 P 160 34x50 G.H5 N 347 G.H5.19
Polar C-term M 421 - G.H2 R 206 G.H2.01
Hydrophobic C-term M 421 - G.H2 R 206 G.H2.01
Van-der-waals C-term M 421 - G.H2 R 206 G.H2.01
Hydrophobic ICL3 L 259 - G.S6 M 323 G.S6.05
Van-der-waals ICL3 L 259 - G.S6 M 323 G.S6.05
Hydrophobic C-term I 415 - G.H3 S 253 G.H3.11
Van-der-waals ICL3 K 311 - G.S6 C 321 G.S6.03
Polar C-term N 419 - G.H2 R 206 G.H2.01
Hydrophobic C-term N 419 - G.H2 R 206 G.H2.01
Van-der-waals C-term N 419 - G.H2 R 206 G.H2.01
Hydrophobic ICL3 L 259 - G.H4 E 298 G.H4.04
Van-der-waals ICL3 L 259 - G.H4 E 298 G.H4.04
Van-der-waals C-term F 417 - G.H3 E 246 G.H3.04
Hydrophobic TM6 A 322 6x33 G.H5 L 348 G.H5.20
Polar C-term M 421 - G.hfs2 K 181 G.hfs2.04
Hydrophobic C-term I 433 - H.HA Q 68 H.HA.06
Van-der-waals C-term I 433 - H.HA Q 68 H.HA.06
Polar TM2 Y 87 2x37 G.H5 G 350 G.H5.22
Polar C-term G 436 - G.H1 K 54 G.H1.09
Hydrophobic C-term I 437 - G.S2 V 186 G.S2.02
Hydrophobic C-term R 418 - G.s4h3 E 237 G.s4h3.10
Van-der-waals C-term R 418 - G.s4h3 E 237 G.s4h3.10
Hydrophobic ICL2 P 160 34x50 G.H5 I 343 G.H5.15
Hydrophobic ICL2 Q 165 34x55 G.hns1 K 32 G.hns1.03
Hydrophobic ICL2 I 161 34x51 G.S3 L 195 G.S3.01
Van-der-waals ICL2 I 161 34x51 G.S3 L 195 G.S3.01
Polar TM6 T 315 6x26 G.h4s6 E 318 G.h4s6.12
Polar ICL3 K 311 - G.S6 I 319 G.S6.01
Hydrophobic ICL3 K 311 - G.S6 I 319 G.S6.01
Van-der-waals ICL3 K 311 - G.S6 I 319 G.S6.01