Structure information

OPN1MW

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

9YDA

SPECIES

Homo sapiens

RESOLUTION

2.900

PREFERRED CHAIN

R

REFERENCE

10.1073/PNAS.2516318122

PUBLICATION DATE

Dec. 24, 2025

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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
all-<i>trans</i>-retinal L223 5.42x43 TM5 hydrophobic
all-<i>trans</i>-retinal M224 5.43x44 TM5 hydrophobic
all-<i>trans</i>-retinal C228 5.47x47 TM5 hydrophobic
all-<i>trans</i>-retinal W281 6.48x48 TM6 hydrophobic
all-<i>trans</i>-retinal Y284 6.51x51 TM6 hydrophobic

Ligands

all-<i>trans</i>-retinal

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
OPN1MW
TM5
5x43 5.42x43 L223
5x44 5.43x44 M224
5x47 5.47x47 C228
TM6
6x48 6.48x48 W281
6x51 6.51x51 Y284