Structure information

Rhodopsin

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

5DYS

SPECIES

Bos taurus

RESOLUTION

2.300

PREFERRED CHAIN

A

REFERENCE

10.15252/EMBR.201642671

PUBLICATION DATE

Aug. 10, 2016

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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
Retinal (all-trans) A117 3.32x32 TM3 hydrophobic
Retinal (all-trans) Y191 ECL2 hydrophobic
Retinal (all-trans) M207 5.42x43 TM5 hydrophobic
Retinal (all-trans) F208 5.43x44 TM5 hydrophobic
Retinal (all-trans) W265 6.48x48 TM6 hydrophobic
Retinal (all-trans) Y268 6.51x51 TM6 hydrophobic
Retinal (all-trans) A269 6.52x52 TM6 hydrophobic

Ligands

Retinal (all-trans)

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
Rhodopsin
TM3
3x32 3.32x32 A117
TM5
5x43 5.42x43 M207
5x44 5.43x44 F208
TM6
6x48 6.48x48 W265
6x51 6.51x51 Y268
6x52 6.52x52 A269