PDB
9JMC
Resolution
2.6 Å
Released
May 28, 2025
Receptor
motilin
Class
A
Species
Homo sapiens
Ligand
DS-3801b free base
Function
Agonist
Reference
—

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Ligand Amino Acid Generic Number Segment Interaction Type
DS-3801b free base D94 2.60x60 TM2 polar (charge-assisted hydrogen bond)
DS-3801b free base L115 3.29x29 TM3 hydrophobic
DS-3801b free base L115 3.29x29 TM3 Van der Waals
DS-3801b free base G118 3.32x32 TM3 Van der Waals
DS-3801b free base G118 3.32x32 TM3 polar (hydrogen bond with backbone)
DS-3801b free base E119 3.33x33 TM3 polar (hydrogen bond with backbone)
DS-3801b free base E119 3.33x33 TM3 polar (charge-assisted hydrogen bond)
DS-3801b free base F173 4.60x61 TM4 hydrophobic
DS-3801b free base F173 4.60x61 TM4 Van der Waals
DS-3801b free base V177 ECL2 Van der Waals
DS-3801b free base P237 45.52x52 ECL2 polar (hydrogen bond)
DS-3801b free base L245 5.36x37 TM5 polar (hydrogen bond)
DS-3801b free base L249 5.40x41 TM5 hydrophobic
DS-3801b free base L249 5.40x41 TM5 Van der Waals
DS-3801b free base F314 6.51x51 TM6 hydrophobic
DS-3801b free base F314 6.51x51 TM6 Van der Waals
DS-3801b free base R318 6.55x55 TM6 polar (charge-assisted hydrogen bond)
DS-3801b free base Y321 6.58x58 TM6 polar (hydrogen bond)
DS-3801b free base N337 7.35x34 TM7 polar (hydrogen bond with backbone)
DS-3801b free base N337 7.35x34 TM7 polar (hydrogen bond)
DS-3801b free base I338 7.36x35 TM7 Van der Waals
DS-3801b free base A340 7.38x37 TM7 polar (hydrogen bond with backbone)
DS-3801b free base A340 7.38x37 TM7 Van der Waals
DS-3801b free base L341 7.39x38 TM7 polar (hydrogen bond with backbone)
DS-3801b free base L341 7.39x38 TM7 Van der Waals
DS-3801b free base F344 7.42x41 TM7 hydrophobic
DS-3801b free base F344 7.42x41 TM7 Van der Waals
DS-3801b free base Y345 7.43x42 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
motilin receptor
TM2
2x60 2.60x60 D94
TM3
3x29 3.29x29 L115
3x32 3.32x32 G118
3x33 3.33x33 E119
TM4
4x61 4.60x61 F173
ECL2
45x52 45.52x52 P237
TM5
5x37 5.36x37 L245
5x41 5.40x41 L249
TM6
6x51 6.51x51 F314
6x55 6.55x55 R318
6x58 6.58x58 Y321
TM7
7x34 7.35x34 N337
7x35 7.36x35 I338
7x37 7.38x37 A340
7x38 7.39x38 L341
7x41 7.42x41 F344
7x42 7.43x42 Y345