5-HT1B receptor - Go

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Homo sapiens

GPCR PREFERRED CHAIN

S

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Homo sapiens

PDB CODE

RESOLUTION

3.8 Å

REFERENCE

PUBLICATION DATE

June 20, 2018

3D VIEW

NGL is a WebGL based 3D viewer powered by MMTF.

LIGAND INTERACTIONS

LIGANDS

donitriptan - Agonist pubchem gtoplig chembl_ligand

PHYSIOLOGICAL LIGANDS

5-hydroxytryptamine, 5-HT-moduline, tryptamine



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

, , , 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

segment

AA

Number
Generic
number
Hydrophobic TM5 A 235 5x65 G.H5 L 348 G.H5.20
Hydrophobic TM3 I 151 3x54 G.H5 N 347 G.H5.19
Hydrophobic TM6 A 312 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 A 312 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM5 R 238 5x68 G.H5 L 348 G.H5.20
Hydrophobic TM5 R 238 5x68 G.H5 Y 354 G.H5.26
Hydrophobic ICL2 V 155 34x51 G.H5 T 340 G.H5.12
Hydrophobic TM5 A 235 5x65 G.H5 L 353 G.H5.25
Hydrophobic ICL2 V 155 34x51 G.H5 F 336 G.H5.08
Hydrophobic TM3 I 151 3x54 G.H5 I 344 G.H5.16
Hydrophobic TM6 L 316 6x37 G.H5 L 353 G.H5.25
Polar TM6 K 311 6x32 G.H5 Y 354 G.H5.26
Hydrophobic TM6 K 311 6x32 G.H5 Y 354 G.H5.26
Van-der-waals TM6 K 311 6x32 G.H5 Y 354 G.H5.26
Polar TM6 T 315 6x36 G.H5 G 352 G.H5.24
Hydrophobic TM6 T 315 6x36 G.H5 G 352 G.H5.24
Van-der-waals TM6 T 315 6x36 G.H5 G 352 G.H5.24
Hydrophobic TM7 S 372 7x56 G.H5 G 352 G.H5.24
Polar TM3 A 150 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 150 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 150 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM5 R 238 5x68 G.H5 I 344 G.H5.16
Van-der-waals TM5 R 238 5x68 G.H5 I 344 G.H5.16
Polar TM6 R 308 6x29 G.H5 Y 354 G.H5.26
Aromatic TM6 R 308 6x29 G.H5 Y 354 G.H5.26
Hydrophobic TM6 R 308 6x29 G.H5 Y 354 G.H5.26
Van-der-waals TM6 R 308 6x29 G.H5 Y 354 G.H5.26
Hydrophobic ICL2 A 154 34x50 G.H5 I 343 G.H5.15
Polar TM3 R 147 3x50 G.H5 C 351 G.H5.23
Hydrophobic TM3 R 147 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 147 3x50 G.H5 C 351 G.H5.23
Ionic TM5 R 238 5x68 G.H5 D 341 G.H5.13
Polar TM5 R 238 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM5 R 238 5x68 G.H5 D 341 G.H5.13
Van-der-waals TM5 R 238 5x68 G.H5 D 341 G.H5.13
Hydrophobic TM3 I 151 3x54 G.H5 L 348 G.H5.20
Van-der-waals TM3 I 151 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM5 I 239 5x69 G.H5 Y 354 G.H5.26
Hydrophobic TM6 T 315 6x36 G.H5 L 353 G.H5.25
Hydrophobic ICL2 A 154 34x50 G.H5 I 344 G.H5.16
Van-der-waals ICL2 A 154 34x50 G.H5 I 344 G.H5.16
Polar TM7 S 372 7x56 G.H5 C 351 G.H5.23
Hydrophobic TM7 S 372 7x56 G.H5 C 351 G.H5.23
Van-der-waals TM7 S 372 7x56 G.H5 C 351 G.H5.23
Hydrophobic TM5 I 231 5x61 G.H5 L 353 G.H5.25
Van-der-waals TM5 I 231 5x61 G.H5 L 353 G.H5.25