PDB
8PJK
Resolution
2.4 Å
Released
May 29, 2024
Receptor
5-HT1A
Class
A
Species
Homo sapiens
Ligands
ST171
Phosphatidylinositol-4-phosphate
Function
Agonist (partial)
PAM
Reference
—
ST171 Phosphatidylinositol-4-phosphate

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Ligand Amino Acid Generic Number Segment Interaction Type
ST171 Y96 2.64x63 TM2 hydrophobic
ST171 Q97 2.65x64 TM2 Van der Waals
ST171 Q97 2.65x64 TM2 polar (hydrogen bond)
ST171 D116 3.32x32 TM3 polar (charge-assisted hydrogen bond)
ST171 V117 3.33x33 TM3 Van der Waals
ST171 V117 3.33x33 TM3 hydrophobic
ST171 C120 3.36x36 TM3 Van der Waals
Phosphatidylinositol-4-phosphate R134 3.50x50 TM3 polar (charge-assisted hydrogen bond)
ST171 I189 45.52x52 ECL2 Van der Waals
ST171 I189 45.52x52 ECL2 hydrophobic
ST171 S199 5.42x43 TM5 Van der Waals
ST171 A203 5.46x461 TM5 hydrophobic
ST171 A203 5.46x461 TM5 Van der Waals
Phosphatidylinositol-4-phosphate K342 6.32x32 TM6 polar (charge-assisted hydrogen bond)
Phosphatidylinositol-4-phosphate K345 6.35x35 TM6 Van der Waals
Phosphatidylinositol-4-phosphate T346 6.36x36 TM6 Van der Waals
Phosphatidylinositol-4-phosphate T346 6.36x36 TM6 polar (hydrogen bond)
ST171 W358 6.48x48 TM6 Van der Waals
ST171 F361 6.51x51 TM6 Van der Waals
ST171 F361 6.51x51 TM6 hydrophobic
ST171 F362 6.52x52 TM6 Van der Waals
ST171 F362 6.52x52 TM6 hydrophobic
ST171 Y390 7.43x42 TM7 polar (hydrogen bond)
Phosphatidylinositol-4-phosphate I399 7.52x52 TM7 Van der Waals
Phosphatidylinositol-4-phosphate I399 7.52x52 TM7 polar (hydrogen bond with backbone)
Phosphatidylinositol-4-phosphate Y400 7.53x53 TM7 Van der Waals
Phosphatidylinositol-4-phosphate F403 7.56x56 TM7 polar (hydrogen bond with backbone)
Phosphatidylinositol-4-phosphate F403 7.56x56 TM7 Van der Waals
Phosphatidylinositol-4-phosphate N404 8.47x47 H8 polar (hydrogen bond)
Phosphatidylinositol-4-phosphate N404 8.47x47 H8 Van der Waals

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NGL is a WebGL based 3D viewer powered by MMTF.

Download PDB file

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

GPCRdb(A)
GPCRdb(A)
5-HT1A receptor
TM2
2x63 2.64x63 Y96
2x64 2.65x64 Q97
TM3
3x32 3.32x32 D116
3x33 3.33x33 V117
3x36 3.36x36 C120
3x50 3.50x50 R134
ECL2
45x52 45.52x52 I189
TM5
5x43 5.42x43 S199
5x461 5.46x461 A203
TM6
6x32 6.32x32 K342
6x35 6.35x35 K345
6x36 6.36x36 T346
6x48 6.48x48 W358
6x51 6.51x51 F361
6x52 6.52x52 F362
TM7
7x42 7.43x42 Y390
7x52 7.52x52 I399
7x53 7.53x53 Y400
7x56 7.56x56 F403
H8
8x47 8.47x47 N404