Structure information

Rhodopsin

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

6PH7

SPECIES

Bos taurus

RESOLUTION

2.900

PREFERRED CHAIN

A

REFERENCE

PUBLICATION DATE

July 1, 2020

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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
Nerol E122 3.37x37 TM3 polar (charge-assisted hydrogen bond)
Nerol Y191 ECL2 Van der Waals
Nerol Y191 ECL2 hydrophobic
Nerol V204 5.39x40 TM5 Van der Waals
Nerol V204 5.39x40 TM5 hydrophobic
Nerol M207 5.42x43 TM5 Van der Waals
Nerol M207 5.42x43 TM5 hydrophobic
Nerol H211 5.46x461 TM5 Van der Waals
Nerol H211 5.46x461 TM5 polar (hydrogen bond with backbone)
Nerol F212 5.47x47 TM5 Van der Waals
Nerol F212 5.47x47 TM5 hydrophobic
Nerol W265 6.48x48 TM6 Van der Waals
Nerol Y268 6.51x51 TM6 Van der Waals
Nerol Y268 6.51x51 TM6 hydrophobic
Nerol A269 6.52x52 TM6 Van der Waals
Nerol A272 6.55x55 TM6 hydrophobic
Nerol A272 6.55x55 TM6 Van der Waals

Ligands

Nerol

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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
3x37 3.37x37 E122
TM5
5x40 5.39x40 V204
5x43 5.42x43 M207
5x461 5.46x461 H211
5x47 5.47x47 F212
TM6
6x48 6.48x48 W265
6x51 6.51x51 Y268
6x52 6.52x52 A269
6x55 6.55x55 A272