PDB
9VI9
Resolution
3.0 Å
Released
Dec. 3, 2025
Receptor
NPFF1
Class
A
Species
Homo sapiens
Ligand
Function
RFRP-3
Agonist
Reference
10.1093/PROCEL/PWAF090

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Ligand Amino Acid Generic Number Segment Interaction Type
RFRP-3 N104 2.65x64 TM2 Van der Waals
RFRP-3 W109 23.50x50 ECL1 Van der Waals
RFRP-3 Q123 3.32x32 TM3 Van der Waals
RFRP-3 V127 3.36x36 TM3 Van der Waals
RFRP-3 E185 ECL2 polar (charge-charge)
RFRP-3 E185 ECL2 polar (hydrogen bond)
RFRP-3 C203 45.50x50 ECL2 polar (hydrogen bond with backbone)
RFRP-3 W204 45.51x51 ECL2 aromatic (pi-cation)
RFRP-3 W204 45.51x51 ECL2 hydrophobic
RFRP-3 E205 45.52x52 ECL2 polar (hydrogen bond)
RFRP-3 E205 45.52x52 ECL2 polar (charge-charge)
RFRP-3 R213 5.35x36 TM5 Van der Waals
RFRP-3 Y216 5.38x39 TM5 Van der Waals
RFRP-3 T217 5.39x40 TM5 polar (hydrogen bond)
RFRP-3 L220 5.42x43 TM5 hydrophobic
RFRP-3 W287 6.52x52 TM6 hydrophobic
RFRP-3 L290 6.55x55 TM6 hydrophobic
RFRP-3 I293 6.58x58 TM6 hydrophobic
RFRP-3 D294 6.59x59 TM6 polar (charge-charge)
RFRP-3 T307 7.31x30 TM7 Van der Waals
RFRP-3 F311 7.35x34 TM7 hydrophobic
RFRP-3 H315 7.39x38 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
NPFF1 receptor
TM2
2x64 2.65x64 N104
ECL1
23x50 23.50x50 W109
TM3
3x32 3.32x32 Q123
3x36 3.36x36 V127
ECL2
45x50 45.50x50 C203
45x51 45.51x51 W204
45x52 45.52x52 E205
TM5
5x36 5.35x36 R213
5x39 5.38x39 Y216
5x40 5.39x40 T217
5x43 5.42x43 L220
TM6
6x52 6.52x52 W287
6x55 6.55x55 L290
6x58 6.58x58 I293
6x59 6.59x59 D294
TM7
7x30 7.31x30 T307
7x34 7.35x34 F311
7x38 7.39x38 H315