Structure information

5-HT1B receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

6G79

SPECIES

Homo sapiens

RESOLUTION

3.780

PREFERRED CHAIN

S

REFERENCE

10.1038/S41586-018-0241-9

PUBLICATION DATE

June 20, 2018

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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
donitriptan D129 3.32x32 TM3 polar (charge-charge)
donitriptan I130 3.33x33 TM3 hydrophobic
donitriptan I130 3.33x33 TM3 Van der Waals
donitriptan C133 3.36x36 TM3 Van der Waals
donitriptan C133 3.36x36 TM3 hydrophobic
donitriptan T134 3.37x37 TM3 polar (hydrogen bond)
donitriptan V201 45.52x52 ECL2 hydrophobic
donitriptan V201 45.52x52 ECL2 Van der Waals
donitriptan W327 6.48x48 TM6 hydrophobic
donitriptan W327 6.48x48 TM6 Van der Waals
donitriptan F330 6.51x51 TM6 Van der Waals
donitriptan F330 6.51x51 TM6 hydrophobic
donitriptan F331 6.52x52 TM6 Van der Waals
donitriptan F331 6.52x52 TM6 aromatic (edge-to-face)
donitriptan S334 6.55x55 TM6 Van der Waals
donitriptan M337 6.58x58 TM6 Van der Waals
donitriptan M337 6.58x58 TM6 hydrophobic
donitriptan F351 7.35x34 TM7 hydrophobic
donitriptan F351 7.35x34 TM7 Van der Waals
donitriptan Y359 7.43x42 TM7 Van der Waals

Ligands

donitriptan

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Residue Diagrams

A N S L T T A L T I L A L L M V L L V K 1 A S L A V T D L L V S L I V M P I S T M Y 2 V C L H L I S A T C C T I D S S L W F D 3 A A V M I A L V W V F S I S I S L P P F 4 Y L A I L L L T P F Y F A G V T S Y V T Y 5 G I I L G A F I V C W L P F F I I S L V 6 I P N I L S N L Y G L W T F F D F I A 7
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ICL1 R K L H ICL1ECL1 R W T L ECL1ICL2 A V E Y S A K R ICL2ECL2 R Q A K A E E E V S E C V V N T D ECL2ICL3 N R T G K R L T R A Q L I T D S P G S T S S V T S I N S R V P D V P S E S G S P V Y V N Q V K V R V S D A L L E K K ICL3ECL3 K D A C W F ECL3N-term M E E P G A Q C A P P P P A G S E T W V P Q A N L S S A P S Q N C S A K D Y I Y Q D S I N-termC-term R F K C T S C-term S L P W K V L L V M L L A L I T L A T T L S N A F V I A T V Y R T T P A N Y L I A S L A V T D L L V S I L V M P I S T M Y T V T G G Q V V C D F W L S S D I T C C T A S I L H L C V I A L D R Y W A I T D T P K R A A V M I A L V W V F S I S I S L P P F F W H I L Y T V Y S T V G A F Y F P T L L L I A L Y G R I Y V E A R S R I L K Q T P K L M A A R E R K A T K T L G I I L G A F I V C W L P F F I I S L V M P I C H L A I F D F F T W L G Y L N S L I N P I I Y T M S N E D F H K F K Q A L I
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Residue Table


GPCRdb(A)
GPCRdb(A)
5-HT1B receptor
TM3
3x32 3.32x32 D129
3x33 3.33x33 I130
3x36 3.36x36 C133
3x37 3.37x37 T134
ECL2
45x52 45.52x52 V201
TM6
6x48 6.48x48 W327
6x51 6.51x51 F330
6x52 6.52x52 F331
6x55 6.55x55 S334
6x58 6.58x58 M337
TM7
7x34 7.35x34 F351
7x42 7.43x42 Y359