PDB
4WW3
Resolution
2.8 Å
Released
June 17, 2015
Receptor
Rhodopsin
Class
A
Species
Todarodes pacificus
Ligand
all-trans-retinal
Function
Agonist
Reference
10.1371/JOURNAL.PONE.0126970

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Ligand Amino Acid Generic Number Segment Interaction Type
all-trans-retinal Y111 3.28x28 TM3 hydrophobic
all-trans-retinal F120 3.37x37 TM3 hydrophobic
all-trans-retinal F188 45.52x52 ECL2 hydrophobic
all-trans-retinal F205 5.43x44 TM5 hydrophobic
all-trans-retinal F209 5.47x47 TM5 hydrophobic
all-trans-retinal W274 6.48x48 TM6 hydrophobic
all-trans-retinal A278 6.52x52 TM6 hydrophobic

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

GPCRdb(A)
GPCRdb(A)
Rhodopsin
TM3
3x28 3.28x28 Y111
3x37 3.37x37 F120
ECL2
45x52 45.52x52 F188
TM5
5x44 5.43x44 F205
5x47 5.47x47 F209
TM6
6x48 6.48x48 W274
6x52 6.52x52 A278