α2B-adrenoceptor - Gi1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Homo sapiens

GPCR PREFERRED CHAIN

R

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Homo sapiens

PDB CODE

6K42

RESOLUTION

4.1 Å

REFERENCE

10.1038/S41589-020-0492-2

PUBLICATION DATE

April 15, 2020

3D VIEW

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

LIGAND INTERACTIONS

34 interactions (Click to see)

LIGANDS

dexmedetomidine - Agonist pubchem gtoplig chembl_ligand drugbank drug_central

PHYSIOLOGICAL LIGANDS

(-)-noradrenaline, (-)-adrenaline



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 110 3x50 G.H5 C 351 G.H5.23
Van-der-waals TM3 R 110 3x50 G.H5 C 351 G.H5.23
Hydrophobic ICL1 P 46 - G.hns1 R 32 G.hns1.03
Van-der-waals ICL1 P 46 - G.hns1 R 32 G.hns1.03
Hydrophobic TM3 V 114 3x54 G.H5 N 347 G.H5.19
Van-der-waals TM3 V 114 3x54 G.H5 N 347 G.H5.19
Hydrophobic ICL2 L 118 34x51 G.H5 V 339 G.H5.11
Aromatic TM6 R 365 6x29 G.H5 F 354 G.H5.26
Hydrophobic TM6 R 365 6x29 G.H5 F 354 G.H5.26
Van-der-waals TM6 R 365 6x29 G.H5 F 354 G.H5.26
Hydrophobic ICL2 L 118 34x51 G.H5 T 340 G.H5.12
Van-der-waals ICL2 L 118 34x51 G.H5 T 340 G.H5.12
Hydrophobic ICL2 L 118 34x51 G.H5 F 336 G.H5.08
Van-der-waals ICL2 L 118 34x51 G.H5 F 336 G.H5.08
Polar H8 Q 431 8x48 G.H5 K 349 G.H5.21
Hydrophobic H8 Q 431 8x48 G.H5 K 349 G.H5.21
Van-der-waals H8 Q 431 8x48 G.H5 K 349 G.H5.21
Hydrophobic TM6 F 369 6x33 G.H5 L 353 G.H5.25
Van-der-waals TM6 F 369 6x33 G.H5 L 353 G.H5.25
Hydrophobic TM6 L 373 6x37 G.H5 L 353 G.H5.25
Hydrophobic TM3 V 114 3x54 G.H5 I 344 G.H5.16
Hydrophobic ICL2 L 118 34x51 G.H5 I 343 G.H5.15
Van-der-waals ICL2 L 118 34x51 G.H5 I 343 G.H5.15
Hydrophobic TM6 V 372 6x36 G.H5 L 353 G.H5.25
Hydrophobic TM5 S 202 5x68 G.H5 I 344 G.H5.16
Hydrophobic ICL2 A 117 34x50 G.H5 I 344 G.H5.16
Hydrophobic ICL2 L 118 34x51 G.S3 L 194 G.S3.01
Polar TM6 R 365 6x29 G.h4s6 D 315 G.h4s6.09
Polar ICL2 R 124 34x57 G.hns1 R 32 G.hns1.03
Hydrophobic ICL2 R 124 34x57 G.hns1 R 32 G.hns1.03
Van-der-waals ICL2 R 124 34x57 G.hns1 R 32 G.hns1.03
Hydrophobic ICL4 F 429 - G.H5 G 352 G.H5.24
Van-der-waals ICL4 F 429 - G.H5 G 352 G.H5.24
Hydrophobic ICL2 A 117 34x50 G.H5 T 340 G.H5.12
Polar TM3 A 113 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM3 A 113 3x53 G.H5 N 347 G.H5.19
Van-der-waals TM3 A 113 3x53 G.H5 N 347 G.H5.19
Hydrophobic TM5 I 195 5x61 G.H5 L 353 G.H5.25
Hydrophobic TM3 V 114 3x54 G.H5 L 348 G.H5.20
Hydrophobic TM4 P 126 4x39 G.HN E 28 G.HN.52
Van-der-waals TM4 P 126 4x39 G.HN E 28 G.HN.52
Van-der-waals ICL2 S 122 34x55 G.S3 L 194 G.S3.01
Polar H8 N 430 8x47 G.H5 D 350 G.H5.22
Polar TM6 R 368 6x32 G.H5 F 354 G.H5.26