Structure information

C5a1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

8HK5

SPECIES

Homo sapiens

RESOLUTION

3.000

PREFERRED CHAIN

A

REFERENCE

10.1038/S41589-023-01339-W

PUBLICATION DATE

May 10, 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 L22 N-term polar (hydrogen bond with backbone)
C5a L22 N-term Van der Waals
C5a P25 N-term Van der Waals
C5a V26 N-term polar (hydrogen bond with backbone)
C5a V26 N-term Van der Waals
C5a D27 N-term Van der Waals
C5a D27 N-term polar (hydrogen bond with backbone)
C5a K28 N-term Van der Waals
C5a T29 N-term Van der Waals
C5a R34 1.29x29 TM1 Van der Waals
C5a I91 2.59x59 TM2 Van der Waals
C5a I91 2.59x59 TM2 hydrophobic
C5a L92 2.60x60 TM2 Van der Waals
C5a L92 2.60x60 TM2 hydrophobic
C5a H100 ECL1 Van der Waals
C5a P113 3.29x29 TM3 Van der Waals
C5a P113 3.29x29 TM3 hydrophobic
C5a I116 3.32x32 TM3 hydrophobic
C5a I116 3.32x32 TM3 Van der Waals
C5a L117 3.33x33 TM3 Van der Waals
C5a L117 3.33x33 TM3 hydrophobic
C5a M120 3.36x36 TM3 Van der Waals
C5a R175 ECL2 polar (charge-assisted hydrogen bond)
C5a V176 ECL2 polar (hydrogen bond with backbone)
C5a V176 ECL2 Van der Waals
C5a R178 ECL2 Van der Waals
C5a Y181 ECL2 hydrophobic
C5a Y181 ECL2 Van der Waals
C5a F182 ECL2 Van der Waals
C5a F182 ECL2 hydrophobic
C5a C188 45.50x50 ECL2 Van der Waals
C5a G189 45.51x51 ECL2 polar (hydrogen bond with backbone)
C5a G189 45.51x51 ECL2 Van der Waals
C5a V190 45.52x52 ECL2 Van der Waals
C5a V190 45.52x52 ECL2 polar (hydrogen bond with backbone)
C5a D191 ECL2 polar (charge-assisted hydrogen bond)
C5a S193 ECL2 Van der Waals
C5a H194 ECL2 polar (hydrogen bond)
C5a H194 ECL2 Van der Waals
C5a H194 ECL2 polar (hydrogen bond with backbone)
C5a E199 5.35x36 TM5 polar (charge-assisted hydrogen bond)
C5a R206 5.42x43 TM5 Van der Waals
C5a Y258 6.51x51 TM6 polar (hydrogen bond with backbone)
C5a Y258 6.51x51 TM6 Van der Waals
C5a T261 6.54x54 TM6 polar (hydrogen bond)
C5a T261 6.54x54 TM6 Van der Waals
C5a G262 6.55x55 TM6 polar (hydrogen bond with backbone)
C5a G262 6.55x55 TM6 Van der Waals
C5a F275 7.28x27 TM7 hydrophobic
C5a F275 7.28x27 TM7 Van der Waals
C5a L276 7.29x28 TM7 hydrophobic
C5a L276 7.29x28 TM7 Van der Waals
C5a K279 7.32x31 TM7 Van der Waals
C5a K280 7.33x32 TM7 Van der Waals
C5a D282 7.35x34 TM7 polar (charge-assisted hydrogen bond)
C5a S283 7.36x35 TM7 Van der Waals
C5a S283 7.36x35 TM7 polar (hydrogen bond with backbone)
C5a S283 7.36x35 TM7 polar (hydrogen bond)
C5a S283 7.36x35 TM7 polar (hydrogen bond)

Ligands

C5a

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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 Q G F Q G R L R K S 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
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Residue Table


GPCRdb(A)
GPCRdb(A)
C5a1 receptor
TM1
1x29 1.29x29 R34
TM2
2x59 2.59x59 I91
2x60 2.60x60 L92
TM3
3x29 3.29x29 P113
3x32 3.32x32 I116
3x33 3.33x33 L117
3x36 3.36x36 M120
ECL2
45x50 45.50x50 C188
45x51 45.51x51 G189
45x52 45.52x52 V190
TM5
5x36 5.35x36 E199
5x43 5.42x43 R206
TM6
6x51 6.51x51 Y258
6x54 6.54x54 T261
6x55 6.55x55 G262
TM7
7x27 7.28x27 F275
7x28 7.29x28 L276
7x31 7.32x31 K279
7x32 7.33x32 K280
7x34 7.35x34 D282
7x35 7.36x35 S283