PDB
9EJZ
Resolution
2.1 Å
Released
Aug. 13, 2025
Receptor
M5
Class
A
Species
Homo sapiens
Ligands
Function
VU6007678
Ago-PAM
acetylcholine
Agonist
Reference
—
VU6007678 acetylcholine

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Ligand Amino Acid Generic Number Segment Interaction Type
VU6007678 Y68 2.42x42 TM2 Van der Waals
acetylcholine D110 3.32x32 TM3 polar (charge-charge)
acetylcholine Y111 3.33x33 TM3 aromatic (pi-cation)
acetylcholine Y111 3.33x33 TM3 hydrophobic
acetylcholine S114 3.36x36 TM3 Van der Waals
acetylcholine N115 3.37x37 TM3 hydrophobic
VU6007678 V123 3.45x45 TM3 hydrophobic
VU6007678 F126 3.48x48 TM3 hydrophobic
VU6007678 D127 3.49x49 TM3 Van der Waals
VU6007678 Y129 3.51x51 TM3 Van der Waals
VU6007678 F130 3.52x52 TM3 hydrophobic
VU6007678 F130 3.52x52 TM3 aromatic (edge-to-face)
VU6007678 T133 3.55x55 TM3 Van der Waals
VU6007678 R134 3.56x56 TM3 hydrophobic
VU6007678 R134 3.56x56 TM3 aromatic (pi-cation)
VU6007678 Y138 ICL2 hydrophobic
VU6007678 K141 ICL2 polar (hydrogen bond)
VU6007678 R146 4.41x41 TM4 polar (hydrogen bond)
VU6007678 I149 4.44x44 TM4 hydrophobic
VU6007678 M150 4.45x45 TM4 hydrophobic
acetylcholine W162 4.57x57 TM4 hydrophobic
acetylcholine A201 5.46x461 TM5 Van der Waals
acetylcholine W455 6.48x48 TM6 hydrophobic
acetylcholine W455 6.48x48 TM6 aromatic (pi-cation)
acetylcholine Y458 6.51x51 TM6 aromatic (pi-cation)
acetylcholine Y481 7.39x38 TM7 aromatic (pi-cation)
acetylcholine C484 7.42x41 TM7 Van der Waals
acetylcholine Y485 7.43x42 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
M5 receptor
TM2
2x42 2.42x42 Y68
TM3
3x32 3.32x32 D110
3x33 3.33x33 Y111
3x36 3.36x36 S114
3x37 3.37x37 N115
3x45 3.45x45 V123
3x48 3.48x48 F126
3x49 3.49x49 D127
3x51 3.51x51 Y129
3x52 3.52x52 F130
3x55 3.55x55 T133
3x56 3.56x56 R134
TM4
4x41 4.41x41 R146
4x44 4.44x44 I149
4x45 4.45x45 M150
4x57 4.57x57 W162
TM5
5x461 5.46x461 A201
TM6
6x48 6.48x48 W455
6x51 6.51x51 Y458
TM7
7x38 7.39x38 Y481
7x41 7.42x41 C484
7x42 7.43x42 Y485