PDB
9V38
Resolution
3.3 Å
Released
July 1, 2026
Receptor
C5a2
Class
A
Species
Homo sapiens
Ligand
EP54
Function
Agonist
Reference
10.1016/J.MOLCEL.2026.06.002

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Ligand Amino Acid Generic Number Segment Interaction Type
EP54 L90 2.60x60 TM2 hydrophobic
EP54 R173 ECL2 polar (charge-assisted hydrogen bond)
EP54 C186 45.50x50 ECL2 Van der Waals
EP54 V187 45.51x51 ECL2 hydrophobic
EP54 V187 45.51x51 ECL2 Van der Waals
EP54 V188 45.52x52 ECL2 polar (hydrogen bond with backbone)
EP54 V188 45.52x52 ECL2 Van der Waals
EP54 D189 ECL2 Van der Waals
EP54 E197 5.35x36 TM5 Van der Waals
EP54 Y249 6.51x51 TM6 Van der Waals
EP54 L256 6.58x58 TM6 Van der Waals
EP54 L256 6.58x58 TM6 hydrophobic
EP54 A260 ECL3 Van der Waals
EP54 P261 ECL3 hydrophobic
EP54 P261 ECL3 Van der Waals
EP54 L270 7.32x31 TM7 hydrophobic
EP54 E273 7.35x34 TM7 polar (charge-assisted hydrogen bond)

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

GPCRdb(A)
GPCRdb(A)
C5a2 receptor
TM2
2x60 2.60x60 L90
ECL2
45x50 45.50x50 C186
45x51 45.51x51 V187
45x52 45.52x52 V188
TM5
5x36 5.35x36 E197
TM6
6x51 6.51x51 Y249
6x58 6.58x58 L256
TM7
7x31 7.32x31 L270
7x34 7.35x34 E273