PDB
7Y65
Resolution
3.2 Å
Released
March 1, 2023
Receptor
C5a1
Class
A
Species
Homo sapiens
Ligand
C5aPEP
Function
Agonist
Reference
10.1038/S41422-023-00779-2

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Ligand Amino Acid Generic Number Segment Interaction Type
C5aPEP L92 2.60x60 TM2 hydrophobic
C5aPEP I116 3.32x32 TM3 hydrophobic
C5aPEP V176 ECL2 hydrophobic
C5aPEP L187 ECL2 hydrophobic
C5aPEP C188 45.50x50 ECL2 polar (hydrogen bond with backbone)
C5aPEP C188 45.50x50 ECL2 Van der Waals
C5aPEP G189 45.51x51 ECL2 Van der Waals
C5aPEP V190 45.52x52 ECL2 Van der Waals
C5aPEP V190 45.52x52 ECL2 polar (hydrogen bond with backbone)
C5aPEP D191 ECL2 polar (charge-assisted hydrogen bond)
C5aPEP E199 5.35x36 TM5 polar (charge-assisted hydrogen bond)
C5aPEP Y258 6.51x51 TM6 polar (hydrogen bond)
C5aPEP P270 ECL3 hydrophobic
C5aPEP F275 7.28x27 TM7 hydrophobic
C5aPEP F275 7.28x27 TM7 Van der Waals
C5aPEP K279 7.32x31 TM7 polar (charge-assisted hydrogen bond)
C5aPEP D282 7.35x34 TM7 polar (charge-assisted hydrogen bond)
C5aPEP V286 7.39x38 TM7 Van der Waals
C5aPEP 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
TM3
3x32 3.32x32 I116
ECL2
45x50 45.50x50 C188
45x51 45.51x51 G189
45x52 45.52x52 V190
TM5
5x36 5.35x36 E199
TM6
6x51 6.51x51 Y258
TM7
7x27 7.28x27 F275
7x31 7.32x31 K279
7x34 7.35x34 D282
7x38 7.39x38 V286