Structure information

D5 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

8IRV

SPECIES

Homo sapiens

RESOLUTION

3.100

PREFERRED CHAIN

R

REFERENCE

10.1038/S41422-023-00808-0

PUBLICATION DATE

June 7, 2023

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
rotigotine K98 2.61x60 TM2 polar (charge-assisted hydrogen bond)
rotigotine W116 3.28x28 TM3 polar (hydrogen bond)
rotigotine D120 3.32x32 TM3 polar (charge-assisted hydrogen bond)
rotigotine I121 3.33x33 TM3 hydrophobic
rotigotine I121 3.33x33 TM3 Van der Waals
rotigotine S124 3.36x36 TM3 polar (hydrogen bond)
rotigotine T125 3.37x37 TM3 polar (hydrogen bond)
rotigotine S219 45.52x52 ECL2 polar (hydrogen bond)
rotigotine S219 45.52x52 ECL2 polar (hydrogen bond with backbone)
rotigotine L221 ECL2 Van der Waals
rotigotine S229 5.42x43 TM5 polar (hydrogen bond)
rotigotine S229 5.42x43 TM5 polar (hydrogen bond)
rotigotine S229 5.42x43 TM5 polar (hydrogen bond with backbone)
rotigotine S233 5.46x461 TM5 polar (hydrogen bond)
rotigotine W309 6.48x48 TM6 Van der Waals
rotigotine W309 6.48x48 TM6 hydrophobic
rotigotine F312 6.51x51 TM6 hydrophobic
rotigotine F312 6.51x51 TM6 Van der Waals
rotigotine F313 6.52x52 TM6 aromatic (edge-to-face)
rotigotine F313 6.52x52 TM6 Van der Waals
rotigotine N316 6.55x55 TM6 polar (hydrogen bond)
rotigotine F341 7.35x34 TM7 hydrophobic
rotigotine F341 7.35x34 TM7 Van der Waals
rotigotine D342 7.36x35 TM7 polar (charge-assisted hydrogen bond)
rotigotine V345 7.39x38 TM7 polar (hydrogen bond)
rotigotine V345 7.39x38 TM7 polar (hydrogen bond with backbone)
rotigotine G348 7.42x41 TM7 Van der Waals
rotigotine W349 7.43x42 TM7 polar (hydrogen bond)

Ligands

rotigotine

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Residue Diagrams

V N G L L T W I I L L T L L C A T V V Q 1 V S L A V S D L F V A L L V M P W K A V A 2 V C L N L I S A T S C M I D F A V W V D 3 A L V M V G L A W T L S I L I S F I P V 4 Y T V I M I A V P I Y F S I L S S S I A Y 5 S V I M G V F V C C W L P F F I L N C M 6 V P N L S S N A W G F W V F V D F T T 7
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ICL1 R H L R A ICL1ECL1 Y W P F ECL1ICL2 P F R Y K R K M ICL2ECL2 W H R D Q A A S W G G L D L P N N L A N W T P W E E D F W E P D V N A E N C D S S L ECL2ICL3 S S A A C A P D T S L ICL3ECL3 S G H P E G P P A G F P C V ECL3N-term M L P P G S N G T A Y P G Q F A L Y Q Q L A Q G N A V G G S A G A P P L G N-termC-term C S H F C S R T P V E T V N I S N E L I S Y N Q D I V F H K E I A A A Y I H M M P N A V T P G N R E V D N D E E E G P F D R M F Q I Y Q T S P D G D P V A E S V W E L D C E G E I S L D K I T P F T P N G F H C-term P S Q V V T A C L L T L L I I W T L L G N V L V C A A I V R S N M T N V F I V S L A V S D L F V A L L V M P W K A V A E V A G G A F C D V W V A F D I M C S T A S I L N L C V I S V D R Y W A I S R T Q R M A L V M V G L A W T L S I L I S F I P V Q L N N R T Y A I S S S L I S F Y I P V A I M I V T Y T R I Y R I A Q V Q I R R I S S L E R A A E H A Q S C R R A S I K K E T K V L K T L S V I M G V F V C C W L P F F I L N C M V P F C S E T T F D V F V W F G W A N S S L N P V I Y A F N A D F A Q F Q K V L L G
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Residue Table


GPCRdb(A)
GPCRdb(A)
D5 receptor
TM2
2x60 2.61x60 K98
TM3
3x28 3.28x28 W116
3x32 3.32x32 D120
3x33 3.33x33 I121
3x36 3.36x36 S124
3x37 3.37x37 T125
ECL2
45x52 45.52x52 S219
TM5
5x43 5.42x43 S229
5x461 5.46x461 S233
TM6
6x48 6.48x48 W309
6x51 6.51x51 F312
6x52 6.52x52 F313
6x55 6.55x55 N316
TM7
7x34 7.35x34 F341
7x35 7.36x35 D342
7x38 7.39x38 V345
7x41 7.42x41 G348
7x42 7.43x42 W349