PDB
7Y67
Resolution
2.8 Å
Released
March 1, 2023
Receptor
C5a1
Class
A
Species
Homo sapiens
Ligand
Function
C089
Agonist
Reference
10.1038/S41422-023-00779-2

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Ligand Amino Acid Generic Number Segment Interaction Type
C089 L92 2.60x60 TM2 hydrophobic
C089 I96 2.64x64 TM2 hydrophobic
C089 H100 ECL1 Van der Waals
C089 R178 ECL2 hydrophobic
C089 L187 ECL2 hydrophobic
C089 C188 45.50x50 ECL2 Van der Waals
C089 G189 45.51x51 ECL2 Van der Waals
C089 V190 45.52x52 ECL2 Van der Waals
C089 D191 ECL2 polar (charge-charge)
C089 E199 5.35x36 TM5 polar (charge-charge)
C089 Y258 6.51x51 TM6 polar (hydrogen bond with backbone)
C089 T261 6.54x54 TM6 Van der Waals
C089 G262 6.55x55 TM6 Van der Waals
C089 M265 6.58x58 TM6 Van der Waals
C089 P270 ECL3 Van der Waals
C089 F275 7.28x27 TM7 hydrophobic
C089 K279 7.32x31 TM7 Van der Waals
C089 D282 7.35x34 TM7 polar (charge-charge)
C089 V286 7.39x38 TM7 hydrophobic

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

GPCRdb(A)
GPCRdb(A)
C5a1 receptor
TM2
2x60 2.60x60 L92
2x64 2.64x64 I96
ECL2
45x50 45.50x50 C188
45x51 45.51x51 G189
45x52 45.52x52 V190
TM5
5x36 5.35x36 E199
TM6
6x51 6.51x51 Y258
6x54 6.54x54 T261
6x55 6.55x55 G262
6x58 6.58x58 M265
TM7
7x27 7.28x27 F275
7x31 7.32x31 K279
7x34 7.35x34 D282
7x38 7.39x38 V286