PDB
9YDP
Resolution
2.0 Å
Released
Dec. 10, 2025
Receptor
δ
Class
A
Species
Homo sapiens
Ligand
Function
DADLE
Agonist
Reference
10.1101/2025.10.16.682975

NGL is a WebGL based 3D viewer powered by MMTF.

Download PDB file
Download list in excel
Ligand Amino Acid Generic Number Segment Interaction Type
DADLE Q105 2.60x60 TM2 hydrophobic
DADLE K108 2.63x63 TM2 aromatic (pi-cation)
DADLE W114 23.50x50 ECL1 hydrophobic
DADLE V124 3.28x28 TM3 hydrophobic
DADLE L125 3.29x29 TM3 hydrophobic
DADLE D128 3.32x32 TM3 polar (charge-charge)
DADLE D128 3.32x32 TM3 polar (hydrogen bond)
DADLE Y129 3.33x33 TM3 aromatic (edge-to-face)
DADLE Y129 3.33x33 TM3 hydrophobic
DADLE M132 3.36x36 TM3 hydrophobic
DADLE C198 45.50x50 ECL2 hydrophobic
DADLE K214 5.39x40 TM5 polar (charge-charge)
DADLE K214 5.39x40 TM5 polar (hydrogen bond)
DADLE V217 5.42x43 TM5 hydrophobic
DADLE W274 6.48x48 TM6 hydrophobic
DADLE I277 6.51x51 TM6 hydrophobic
DADLE H278 6.52x52 TM6 Van der Waals
DADLE V281 6.55x55 TM6 hydrophobic
DADLE W284 6.58x58 TM6 hydrophobic
DADLE I304 7.39x38 TM7 Van der Waals
DADLE Y308 7.43x42 TM7 Van der Waals

NGL is a WebGL based 3D viewer powered by MMTF.

Download PDB file

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

GPCRdb(A)
GPCRdb(A)
δ receptor
TM2
2x60 2.60x60 Q105
2x63 2.63x63 K108
ECL1
23x50 23.50x50 W114
TM3
3x28 3.28x28 V124
3x29 3.29x29 L125
3x32 3.32x32 D128
3x33 3.33x33 Y129
3x36 3.36x36 M132
ECL2
45x50 45.50x50 C198
TM5
5x40 5.39x40 K214
5x43 5.42x43 V217
TM6
6x48 6.48x48 W274
6x51 6.51x51 I277
6x52 6.52x52 H278
6x55 6.55x55 V281
6x58 6.58x58 W284
TM7
7x38 7.39x38 I304
7x42 7.43x42 Y308