PDB
6I9K
Resolution
2.2 Å
Released
July 3, 2019
Receptor
Rhodopsin
Class
A
Species
Hasarius adansoni
Ligand
Function
all-trans-retinal
Inverse agonist
Reference
10.1073/PNAS.1902192116

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Ligand Amino Acid Generic Number Segment Interaction Type
all-trans-retinal M103 2.57x57 TM2 Van der Waals
all-trans-retinal Y126 3.28x28 TM3 hydrophobic
all-trans-retinal G127 3.29x29 TM3 Van der Waals
all-trans-retinal G130 3.32x32 TM3 Van der Waals
all-trans-retinal S131 3.33x33 TM3 Van der Waals
all-trans-retinal G134 3.36x36 TM3 Van der Waals
all-trans-retinal S199 ECL2 Van der Waals
all-trans-retinal C200 45.50x50 ECL2 Van der Waals
all-trans-retinal T201 45.51x51 ECL2 Van der Waals
all-trans-retinal I202 45.52x52 ECL2 hydrophobic
all-trans-retinal Y218 5.42x43 TM5 hydrophobic
all-trans-retinal A219 5.43x44 TM5 Van der Waals
all-trans-retinal V222 5.46x461 TM5 hydrophobic
all-trans-retinal Y223 5.47x47 TM5 hydrophobic
all-trans-retinal W286 6.44x44 TM6 hydrophobic
all-trans-retinal W290 6.48x48 TM6 hydrophobic
all-trans-retinal Y293 6.51x51 TM6 hydrophobic
all-trans-retinal L294 6.52x52 TM6 hydrophobic
all-trans-retinal S297 6.55x55 TM6 Van der Waals
all-trans-retinal A317 7.39x38 TM7 hydrophobic
all-trans-retinal K321 7.43x42 TM7 covalent bond

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Snake plot — Download: PNG | SVG
ICL1 K N L R ICL1ECL1 T W V I ECL1ICL2 G M A G K P L ICL2ECL2 G W S R Y V P E G S M T S C T I D Y I D T ECL2ICL3 I K S L R S ICL3ECL3 D R T W L ECL3N-term M L P H A A K M A A R V A G D H D G R N I S I V D L L P E D M L P M I H E H W Y K F P P M N-termC-term P C L K C G S D S P K G D S A S T V A E S E K A G E C-term E T S M H Y I L G M L I I V I G I I S V S G N G V V M Y L M M T V T P G N F L V L N L A L S D F G M L F F M M P T M S I N C F A E G P F M C E L Y G M I G S L F G S A S I W S L V M I T L D R Y N V I V K T K V G A L L R M L F V W I W S L G W T I A P M Y A I N P M S Y L I A Y A I F V Y F V P L F I I I Y C Y A F I V M Q V A A H E K S L R E Q A K K M N N E D N K K A S A E F R L A K V A F M T I C C W F M A W T P Y L T L S F L G I F S T P M T S V W G A I F A K A S A C Y N P I V Y G I S H P K L H D Y R A A K F
Helix box plot — Download: PNG | SVG G N G S V S I I G I V I I L M G L I Y H 1 L N L A L S D F G M L F F M M P T M S I 2 M V L S W I S A S G F L S G I M G Y L E 3 A L L R M L F V W I W S L G W T I A P M 4 Y C Y I I I F L P V F Y V F I A Y A I L Y 5 F M T I C C W F M A W T P Y L T L S F L 6 I P N Y C A S A K A F I A G W V S T M 7

GPCRdb(A)
GPCRdb(A)
Rhodopsin
TM2
2x57 2.57x57 M103
TM3
3x28 3.28x28 Y126
3x29 3.29x29 G127
3x32 3.32x32 G130
3x33 3.33x33 S131
3x36 3.36x36 G134
ECL2
45x50 45.50x50 C200
45x51 45.51x51 T201
45x52 45.52x52 I202
TM5
5x43 5.42x43 Y218
5x44 5.43x44 A219
5x461 5.46x461 V222
5x47 5.47x47 Y223
TM6
6x44 6.44x44 W286
6x48 6.48x48 W290
6x51 6.51x51 Y293
6x52 6.52x52 L294
6x55 6.55x55 S297
TM7
7x38 7.39x38 A317
7x42 7.43x42 K321