Rhodopsin - Gt1

GPCR CLASS (FAMILY)

Class A (Rhodopsin)

GPCR SPECIES

Bos taurus

GPCR PREFERRED CHAIN

R

G PROTEIN (FAMILY)

Gi/o

G PROTEIN SPECIES

Bos taurus

PDB CODE

6OYA

RESOLUTION

3.3 Å

REFERENCE

PUBLICATION DATE

July 24, 2019

3D VIEW

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LIGAND INTERACTIONS

24 interactions (Click to see)

LIGANDS

Retinal (all-trans) - Agonist pubchem

PHYSIOLOGICAL LIGANDS

No physiological 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

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
Polar TM6 T 243 6x26 G.H5 D 337 G.H5.13
Van-der-waals TM6 T 243 6x26 G.H5 D 337 G.H5.13
Hydrophobic TM5 V 230 5x65 G.H5 L 344 G.H5.20
Van-der-waals ICL2 F 146 - G.hns1 R 28 G.hns1.03
Hydrophobic ICL3 T 242 - G.h4s6 V 312 G.h4s6.10
Hydrophobic ICL3 T 242 - G.H5 K 341 G.H5.17
Hydrophobic TM6 V 250 6x33 G.H5 L 349 G.H5.25
Van-der-waals TM6 V 250 6x33 G.H5 L 349 G.H5.25
Polar TM3 V 138 3x53 G.H5 N 343 G.H5.19
Ionic ICL2 K 141 - G.s2s3 D 189 G.s2s3.02
Polar ICL2 K 141 - G.s2s3 D 189 G.s2s3.02
Hydrophobic ICL3 Q 237 - G.H5 D 337 G.H5.13
Van-der-waals ICL3 Q 237 - G.H5 D 337 G.H5.13
Polar TM6 T 243 6x26 G.H5 K 341 G.H5.17
Van-der-waals TM6 T 243 6x26 G.H5 K 341 G.H5.17
Hydrophobic TM6 V 250 6x33 G.H5 L 344 G.H5.20
Polar ICL2 N 145 - G.hns1 R 28 G.hns1.03
Hydrophobic ICL2 N 145 - G.hns1 R 28 G.hns1.03
Van-der-waals ICL2 N 145 - G.hns1 R 28 G.hns1.03
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 ICL3 T 242 - G.H5 F 350 G.H5.26
Polar ICL4 Q 312 - G.H5 K 345 G.H5.21
Van-der-waals ICL4 Q 312 - G.H5 K 345 G.H5.21
Hydrophobic TM6 M 257 6x40 G.H5 L 349 G.H5.25
Hydrophobic TM3 V 138 3x53 G.H5 C 347 G.H5.23
Van-der-waals TM3 V 138 3x53 G.H5 C 347 G.H5.23
Hydrophobic TM6 E 249 6x32 G.H5 F 350 G.H5.26
Van-der-waals TM6 E 249 6x32 G.H5 F 350 G.H5.26
Hydrophobic TM3 V 139 3x54 G.H5 C 347 G.H5.23
Polar ICL3 Q 237 - G.H5 D 333 G.H5.09
Van-der-waals ICL3 Q 237 - G.H5 D 333 G.H5.09
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
Hydrophobic ICL4 N 310 - G.H5 G 348 G.H5.24
Van-der-waals ICL4 N 310 - G.H5 G 348 G.H5.24
Polar ICL2 R 147 - G.hns1 A 27 G.hns1.02
Van-der-waals ICL2 R 147 - G.hns1 A 27 G.hns1.02
Hydrophobic ICL4 Q 312 - G.H5 G 348 G.H5.24
Van-der-waals ICL4 Q 312 - G.H5 G 348 G.H5.24
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
Polar ICL4 Q 312 - G.H5 D 346 G.H5.22
Polar ICL4 N 310 - G.H5 C 347 G.H5.23
Van-der-waals ICL4 N 310 - G.H5 C 347 G.H5.23
Hydrophobic TM6 M 253 6x36 G.H5 L 349 G.H5.25
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 139 3x54 G.H5 I 340 G.H5.16
Hydrophobic ICL2 R 147 - G.hns1 R 28 G.hns1.03
Hydrophobic TM3 V 139 3x54 G.H5 L 344 G.H5.20
Hydrophobic TM3 R 135 3x50 G.H5 L 349 G.H5.25
Van-der-waals TM3 R 135 3x50 G.H5 L 349 G.H5.25
Polar ICL3 Q 237 - G.S6 Y 316 G.S6.02
Hydrophobic ICL3 Q 237 - G.S6 Y 316 G.S6.02
Van-der-waals ICL3 Q 237 - G.S6 Y 316 G.S6.02