Structure information

5-HT2B receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

6DRZ

SPECIES

Homo sapiens

RESOLUTION

3.100

PREFERRED CHAIN

A

REFERENCE

10.1038/s41594-018-0116-7

PUBLICATION DATE

Aug. 29, 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
methysergide D135 3.32x32 TM3 polar (charge-assisted hydrogen bond)
methysergide V136 3.33x33 TM3 hydrophobic
methysergide V136 3.33x33 TM3 Van der Waals
methysergide S139 3.36x36 TM3 Van der Waals
methysergide T140 3.37x37 TM3 Van der Waals
methysergide V208 45.51x51 ECL2 Van der Waals
methysergide L209 45.52x52 ECL2 polar (hydrogen bond with backbone)
methysergide L209 45.52x52 ECL2 Van der Waals
methysergide F217 5.38x39 TM5 Van der Waals
methysergide F217 5.38x39 TM5 hydrophobic
methysergide G221 5.42x43 TM5 Van der Waals
methysergide S222 5.43x44 TM5 Van der Waals
methysergide G225 5.46x461 TM5 Van der Waals
methysergide F340 6.51x51 TM6 hydrophobic
methysergide F340 6.51x51 TM6 Van der Waals
methysergide F341 6.52x52 TM6 Van der Waals
methysergide F341 6.52x52 TM6 aromatic (edge-to-face)
methysergide N344 6.55x55 TM6 Van der Waals
methysergide L362 7.35x34 TM7 Van der Waals
methysergide E363 7.36x35 TM7 Van der Waals
methysergide V366 7.39x38 TM7 Van der Waals
methysergide V366 7.39x38 TM7 hydrophobic
methysergide Y370 7.43x42 TM7 Van der Waals

Ligands

methysergide

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
5-HT2B receptor
TM3
3x32 3.32x32 D135
3x33 3.33x33 V136
3x36 3.36x36 S139
3x37 3.37x37 T140
ECL2
45x51 45.51x51 V208
45x52 45.52x52 L209
TM5
5x39 5.38x39 F217
5x43 5.42x43 G221
5x44 5.43x44 S222
5x461 5.46x461 A225
TM6
6x51 6.51x51 F340
6x52 6.52x52 F341
6x55 6.55x55 N344
TM7
7x34 7.35x34 L362
7x35 7.36x35 E363
7x38 7.39x38 V366
7x42 7.43x42 Y370