Rhodopsin - Gt1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Bos taurus

GPCR PREFERRED CHAIN

A

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Bos taurus

PDB CODE

RESOLUTION

3.3 Å

REFERENCE

PUBLICATION DATE

Jan. 25, 2012

3D VIEW

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

LIGAND INTERACTIONS

LIGANDS

Retinal (all-trans) - Agonist pubchem

ENDOGENOUS LIGANDS

No endogenous ligands available



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 TM3 V 139 3x54 G.H5 L 344 G.H5.20
Hydrophobic TM2 L 72 2x39 G.H5 C 347 G.H5.23
Van-der-waals TM2 L 72 2x39 G.H5 C 347 G.H5.23
Hydrophobic TM3 V 138 3x53 G.H5 C 347 G.H5.23
Hydrophobic TM6 Y 257 6x40 G.H5 L 349 G.H5.25
Hydrophobic TM6 A 246 6x29 G.H5 F 350 G.H5.26
Van-der-waals TM6 A 246 6x29 G.H5 F 350 G.H5.26
Polar H8 Q 312 8x49 G.H5 K 345 G.H5.21
Van-der-waals H8 Q 312 8x49 G.H5 K 345 G.H5.21
Hydrophobic TM5 A 233 5x68 G.H5 I 340 G.H5.16
Polar H8 K 311 8x48 G.H5 G 348 G.H5.24
Hydrophobic TM3 V 139 3x54 G.H5 C 347 G.H5.23
Hydrophobic TM2 L 72 2x39 G.H5 D 346 G.H5.22
Van-der-waals TM2 L 72 2x39 G.H5 D 346 G.H5.22
Hydrophobic TM6 A 246 6x29 G.H5 L 341 G.H5.17
Van-der-waals TM6 A 246 6x29 G.H5 L 341 G.H5.17
Van-der-waals TM6 E 249 6x32 G.H5 L 349 G.H5.25
Hydrophobic TM5 V 230 5x65 G.H5 I 340 G.H5.16
Van-der-waals TM5 V 230 5x65 G.H5 I 340 G.H5.16
Hydrophobic TM6 T 242 6x25 G.H5 L 341 G.H5.17
Van-der-waals TM6 T 242 6x25 G.H5 L 341 G.H5.17
Polar H8 Q 312 8x49 G.H5 D 346 G.H5.22
Van-der-waals H8 Q 312 8x49 G.H5 D 346 G.H5.22
Hydrophobic H8 N 310 8x47 G.H5 G 348 G.H5.24
Hydrophobic TM5 T 229 5x64 G.H5 I 340 G.H5.16
Hydrophobic TM3 V 139 3x54 G.H5 I 340 G.H5.16
Hydrophobic TM6 V 250 6x33 G.H5 L 344 G.H5.20
Van-der-waals TM6 V 250 6x33 G.H5 L 344 G.H5.20
Hydrophobic TM5 V 230 5x65 G.H5 L 344 G.H5.20
Polar TM3 V 138 3x53 G.H5 N 343 G.H5.19
Hydrophobic TM3 V 138 3x53 G.H5 N 343 G.H5.19
Van-der-waals TM3 V 138 3x53 G.H5 N 343 G.H5.19
Hydrophobic TM6 V 250 6x33 G.H5 L 349 G.H5.25
Hydrophobic TM6 T 243 6x26 G.H5 L 341 G.H5.17
Van-der-waals TM6 T 243 6x26 G.H5 L 341 G.H5.17
Hydrophobic TM6 K 245 6x28 G.H5 F 350 G.H5.26
Hydrophobic TM6 A 246 6x29 G.H5 L 344 G.H5.20
Hydrophobic TM6 T 242 6x25 G.H5 F 350 G.H5.26
Polar H8 N 310 8x47 G.H5 C 347 G.H5.23
Hydrophobic TM3 V 139 3x54 G.H5 N 343 G.H5.19
Polar TM3 R 135 3x50 G.H5 C 347 G.H5.23
Hydrophobic TM3 R 135 3x50 G.H5 C 347 G.H5.23
Van-der-waals TM3 R 135 3x50 G.H5 C 347 G.H5.23
Hydrophobic TM3 R 135 3x50 G.H5 L 349 G.H5.25