PDB
9PPW
Resolution
3.3 Å
Released
March 4, 2026
Receptor
δ
Class
A
Species
Homo sapiens
Ligand
naltrindole
Function
Antagonist
Reference
10.1126/SCIADV.AEB6737

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Ligand Amino Acid Generic Number Segment Interaction Type
naltrindole D128 3.32x32 TM3 polar (charge-assisted hydrogen bond)
naltrindole Y129 3.33x33 TM3 Van der Waals
naltrindole M132 3.36x36 TM3 hydrophobic
naltrindole M132 3.36x36 TM3 Van der Waals
naltrindole W274 6.48x48 TM6 Van der Waals
naltrindole W274 6.48x48 TM6 hydrophobic
naltrindole I277 6.51x51 TM6 hydrophobic
naltrindole I277 6.51x51 TM6 Van der Waals
naltrindole H278 6.52x52 TM6 aromatic (face-to-edge)
naltrindole H278 6.52x52 TM6 Van der Waals
naltrindole V281 6.55x55 TM6 hydrophobic
naltrindole V281 6.55x55 TM6 Van der Waals
naltrindole W284 6.58x58 TM6 Van der Waals
naltrindole W284 6.58x58 TM6 aromatic (face-to-edge)
naltrindole L300 7.35x34 TM7 Van der Waals
naltrindole L300 7.35x34 TM7 hydrophobic
naltrindole I304 7.39x38 TM7 hydrophobic
naltrindole I304 7.39x38 TM7 Van der Waals
naltrindole Y308 7.43x42 TM7 hydrophobic
naltrindole Y308 7.43x42 TM7 Van der Waals

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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
TM3
3x32 3.32x32 D128
3x33 3.33x33 Y129
3x36 3.36x36 M132
TM6
6x48 6.48x48 W274
6x51 6.51x51 I277
6x52 6.52x52 H278
6x55 6.55x55 V281
6x58 6.58x58 W284
TM7
7x34 7.35x34 L300
7x38 7.39x38 I304
7x42 7.43x42 Y308