Structure information

M2 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

5YC8

SPECIES

Homo sapiens

RESOLUTION

2.500

PREFERRED CHAIN

A

REFERENCE

10.1038/S41589-018-0152-Y

PUBLICATION DATE

Nov. 21, 2018

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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
N-methyl scopolamine D103 3.32x32 TM3 polar (hydrogen bond with backbone)
N-methyl scopolamine D103 3.32x32 TM3 Van der Waals
N-methyl scopolamine Y104 3.33x33 TM3 hydrophobic
N-methyl scopolamine Y104 3.33x33 TM3 Van der Waals
N-methyl scopolamine S107 3.36x36 TM3 Van der Waals
N-methyl scopolamine S107 3.36x36 TM3 polar (hydrogen bond)
N-methyl scopolamine N108 3.37x37 TM3 Van der Waals
N-methyl scopolamine W155 4.57x57 TM4 hydrophobic
N-methyl scopolamine W155 4.57x57 TM4 Van der Waals
N-methyl scopolamine A191 5.43x44 TM5 Van der Waals
N-methyl scopolamine A194 5.46x461 TM5 Van der Waals
N-methyl scopolamine A194 5.46x461 TM5 hydrophobic
N-methyl scopolamine W400 6.48x48 TM6 Van der Waals
N-methyl scopolamine W400 6.48x48 TM6 aromatic (edge-to-face)
N-methyl scopolamine Y403 6.51x51 TM6 hydrophobic
N-methyl scopolamine Y403 6.51x51 TM6 Van der Waals
N-methyl scopolamine N404 6.52x52 TM6 polar (hydrogen bond)
N-methyl scopolamine N404 6.52x52 TM6 Van der Waals
N-methyl scopolamine Y426 7.39x38 TM7 hydrophobic
N-methyl scopolamine Y426 7.39x38 TM7 Van der Waals
N-methyl scopolamine C429 7.42x41 TM7 hydrophobic
N-methyl scopolamine C429 7.42x41 TM7 Van der Waals
N-methyl scopolamine Y430 7.43x42 TM7 hydrophobic
N-methyl scopolamine Y430 7.43x42 TM7 Van der Waals

Ligands

N-methyl scopolamine

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
M2 receptor
TM3
3x32 3.32x32 D103
3x33 3.33x33 Y104
3x36 3.36x36 S107
3x37 3.37x37 N108
TM4
4x57 4.57x57 W155
TM5
5x44 5.43x44 A191
5x461 5.46x461 A194
TM6
6x48 6.48x48 W400
6x51 6.51x51 Y403
6x52 6.52x52 N404
TM7
7x38 7.39x38 Y426
7x41 7.42x41 C429
7x42 7.43x42 Y430