Structure information

C5a1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

7Y64

SPECIES

Homo sapiens

RESOLUTION

2.900

PREFERRED CHAIN

D

REFERENCE

10.1038/S41422-023-00779-2

PUBLICATION DATE

March 1, 2023

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
C5a anaphylatoxin L22 N-term polar (hydrogen bond with backbone)
C5a anaphylatoxin L22 N-term Van der Waals
C5a anaphylatoxin T24 N-term Van der Waals
C5a anaphylatoxin P25 N-term hydrophobic
C5a anaphylatoxin P25 N-term Van der Waals
C5a anaphylatoxin V26 N-term polar (hydrogen bond with backbone)
C5a anaphylatoxin V26 N-term Van der Waals
C5a anaphylatoxin D27 N-term Van der Waals
C5a anaphylatoxin L92 2.60x60 TM2 Van der Waals
C5a anaphylatoxin L92 2.60x60 TM2 hydrophobic
C5a anaphylatoxin H100 ECL1 Van der Waals
C5a anaphylatoxin W102 23.50x50 ECL1 hydrophobic
C5a anaphylatoxin W102 23.50x50 ECL1 Van der Waals
C5a anaphylatoxin P113 3.29x29 TM3 Van der Waals
C5a anaphylatoxin P113 3.29x29 TM3 hydrophobic
C5a anaphylatoxin I116 3.32x32 TM3 Van der Waals
C5a anaphylatoxin L117 3.33x33 TM3 Van der Waals
C5a anaphylatoxin L117 3.33x33 TM3 hydrophobic
C5a anaphylatoxin R175 ECL2 Van der Waals
C5a anaphylatoxin V176 ECL2 Van der Waals
C5a anaphylatoxin R178 ECL2 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin E180 ECL2 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin Y181 ECL2 hydrophobic
C5a anaphylatoxin Y181 ECL2 Van der Waals
C5a anaphylatoxin F182 ECL2 hydrophobic
C5a anaphylatoxin F182 ECL2 Van der Waals
C5a anaphylatoxin P183 ECL2 hydrophobic
C5a anaphylatoxin P183 ECL2 Van der Waals
C5a anaphylatoxin C188 45.50x50 ECL2 polar (hydrogen bond with backbone)
C5a anaphylatoxin C188 45.50x50 ECL2 Van der Waals
C5a anaphylatoxin G189 45.51x51 ECL2 Van der Waals
C5a anaphylatoxin V190 45.52x52 ECL2 polar (hydrogen bond with backbone)
C5a anaphylatoxin V190 45.52x52 ECL2 Van der Waals
C5a anaphylatoxin D191 ECL2 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin H194 ECL2 Van der Waals
C5a anaphylatoxin H194 ECL2 polar (hydrogen bond)
C5a anaphylatoxin E199 5.35x36 TM5 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin Y258 6.51x51 TM6 polar (hydrogen bond with backbone)
C5a anaphylatoxin Y258 6.51x51 TM6 Van der Waals
C5a anaphylatoxin T261 6.54x54 TM6 polar (hydrogen bond)
C5a anaphylatoxin G262 6.55x55 TM6 polar (hydrogen bond with backbone)
C5a anaphylatoxin G262 6.55x55 TM6 Van der Waals
C5a anaphylatoxin M265 6.58x58 TM6 Van der Waals
C5a anaphylatoxin K279 7.32x31 TM7 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin K280 7.33x32 TM7 Van der Waals
C5a anaphylatoxin D282 7.35x34 TM7 polar (charge-assisted hydrogen bond)
C5a anaphylatoxin S283 7.36x35 TM7 polar (hydrogen bond)
C5a anaphylatoxin S283 7.36x35 TM7 polar (hydrogen bond)

Ligands

C5a anaphylatoxin

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Residue Diagrams

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
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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
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Residue Table


GPCRdb(A)
GPCRdb(A)
C5a1 receptor
TM2
2x60 2.60x60 L92
ECL1
23x50 23.50x50 W102
TM3
3x29 3.29x29 P113
3x32 3.32x32 I116
3x33 3.33x33 L117
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
7x31 7.32x31 K279
7x32 7.33x32 K280
7x34 7.35x34 D282
7x35 7.36x35 S283