PDB
8JZZ
Resolution
3.3 Å
Released
Oct. 18, 2023
Receptor
C5a1
Class
A
Species
Homo sapiens
Ligand
C5a des-Arg (Human)
Function
Agonist (partial)
Reference
10.1016/J.CELL.2023.09.020

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Ligand Amino Acid Generic Number Segment Interaction Type
C5a des-Arg (Human) P25 N-term polar (hydrogen bond with backbone)
C5a des-Arg (Human) P25 N-term Van der Waals
C5a des-Arg (Human) V26 N-term Van der Waals
C5a des-Arg (Human) V26 N-term polar (hydrogen bond with backbone)
C5a des-Arg (Human) D27 N-term polar (hydrogen bond with backbone)
C5a des-Arg (Human) D27 N-term polar (charge-assisted hydrogen bond)
C5a des-Arg (Human) K28 N-term polar (hydrogen bond with backbone)
C5a des-Arg (Human) K28 N-term polar (charge-assisted hydrogen bond)
C5a des-Arg (Human) T29 N-term Van der Waals
C5a des-Arg (Human) L92 2.60x60 TM2 Van der Waals
C5a des-Arg (Human) L92 2.60x60 TM2 hydrophobic
C5a des-Arg (Human) H100 ECL1 Van der Waals
C5a des-Arg (Human) L117 3.33x33 TM3 Van der Waals
C5a des-Arg (Human) L117 3.33x33 TM3 hydrophobic
C5a des-Arg (Human) M120 3.36x36 TM3 Van der Waals
C5a des-Arg (Human) R175 ECL2 polar (charge-assisted hydrogen bond)
C5a des-Arg (Human) R178 ECL2 Van der Waals
C5a des-Arg (Human) E180 ECL2 Van der Waals
C5a des-Arg (Human) Y181 ECL2 hydrophobic
C5a des-Arg (Human) Y181 ECL2 Van der Waals
C5a des-Arg (Human) F182 ECL2 Van der Waals
C5a des-Arg (Human) F182 ECL2 hydrophobic
C5a des-Arg (Human) L187 ECL2 hydrophobic
C5a des-Arg (Human) L187 ECL2 Van der Waals
C5a des-Arg (Human) G189 45.51x51 ECL2 Van der Waals
C5a des-Arg (Human) V190 45.52x52 ECL2 hydrophobic
C5a des-Arg (Human) V190 45.52x52 ECL2 Van der Waals
C5a des-Arg (Human) D191 ECL2 polar (charge-assisted hydrogen bond)
C5a des-Arg (Human) Y192 ECL2 Van der Waals
C5a des-Arg (Human) H194 ECL2 Van der Waals
C5a des-Arg (Human) E199 5.35x36 TM5 Van der Waals
C5a des-Arg (Human) R206 5.42x43 TM5 Van der Waals
C5a des-Arg (Human) Y258 6.51x51 TM6 Van der Waals
C5a des-Arg (Human) M265 6.58x58 TM6 Van der Waals
C5a des-Arg (Human) P270 ECL3 hydrophobic
C5a des-Arg (Human) L276 7.29x28 TM7 Van der Waals
C5a des-Arg (Human) D282 7.35x34 TM7 polar (charge-assisted hydrogen bond)
C5a des-Arg (Human) V286 7.39x38 TM7 hydrophobic
C5a des-Arg (Human) Y290 7.43x42 TM7 Van der Waals
C5a des-Arg (Human) Y290 7.43x42 TM7 hydrophobic

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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
3x33 3.33x33 L117
3x36 3.36x36 M120
ECL2
45x51 45.51x51 G189
45x52 45.52x52 V190
TM5
5x36 5.35x36 E199
5x43 5.42x43 R206
TM6
6x51 6.51x51 Y258
6x58 6.58x58 M265
TM7
7x28 7.29x28 L276
7x34 7.35x34 D282
7x38 7.39x38 V286
7x42 7.43x42 Y290