PDB
7EW3
Resolution
3.1 Å
Released
Sept. 29, 2021
Receptor
S1P3
Class
A
Species
Homo sapiens
Ligand
sphingosine 1-phosphate
Function
Agonist
Reference
10.1038/S41422-021-00567-W

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Ligand Amino Acid Generic Number Segment Interaction Type
sphingosine 1-phosphate Y22 N-term polar (hydrogen bond)
sphingosine 1-phosphate Y22 N-term Van der Waals
sphingosine 1-phosphate R31 N-term polar (charge-assisted hydrogen bond)
sphingosine 1-phosphate N95 2.60x60 TM2 Van der Waals
sphingosine 1-phosphate S99 ECL1 polar (hydrogen bond with backbone)
sphingosine 1-phosphate S99 ECL1 polar (hydrogen bond)
sphingosine 1-phosphate S99 ECL1 polar (hydrogen bond)
sphingosine 1-phosphate T103 23.50x50 ECL1 Van der Waals
sphingosine 1-phosphate R114 3.28x28 TM3 Van der Waals
sphingosine 1-phosphate E115 3.29x29 TM3 polar (charge-assisted hydrogen bond)
sphingosine 1-phosphate F119 3.33x33 TM3 hydrophobic
sphingosine 1-phosphate F119 3.33x33 TM3 Van der Waals
sphingosine 1-phosphate L122 3.36x36 TM3 hydrophobic
sphingosine 1-phosphate L122 3.36x36 TM3 Van der Waals
sphingosine 1-phosphate F260 6.52x52 TM6 hydrophobic
sphingosine 1-phosphate F260 6.52x52 TM6 Van der Waals
sphingosine 1-phosphate I284 7.39x38 TM7 Van der Waals
sphingosine 1-phosphate I284 7.39x38 TM7 hydrophobic

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

GPCRdb(A)
GPCRdb(A)
S1P3 receptor
TM2
2x60 2.60x60 N95
ECL1
23x50 23.50x50 T103
TM3
3x28 3.28x28 R114
3x29 3.29x29 E115
3x33 3.33x33 F119
3x36 3.36x36 L122
TM6
6x52 6.52x52 F260
TM7
7x38 7.39x38 I284