Structure information

Y1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

5ZBH

SPECIES

Homo sapiens

RESOLUTION

3.000

PREFERRED CHAIN

A

REFERENCE

10.1038/S41586-018-0046-X

PUBLICATION DATE

April 25, 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
CHEMBL2046866 P117 3.29x29 TM3 hydrophobic
CHEMBL2046866 Q120 3.32x32 TM3 polar (hydrogen bond)
CHEMBL2046866 Q120 3.32x32 TM3 Van der Waals
CHEMBL2046866 C121 3.33x33 TM3 Van der Waals
CHEMBL2046866 C121 3.33x33 TM3 polar (hydrogen bond)
CHEMBL2046866 I124 3.36x36 TM3 hydrophobic
CHEMBL2046866 I124 3.36x36 TM3 Van der Waals
CHEMBL2046866 F173 4.60x61 TM4 Van der Waals
CHEMBL2046866 F173 4.60x61 TM4 hydrophobic
CHEMBL2046866 D200 45.52x52 ECL2 Van der Waals
CHEMBL2046866 T212 5.39x40 TM5 polar (hydrogen bond)
CHEMBL2046866 L215 5.42x43 TM5 Van der Waals
CHEMBL2046866 L215 5.42x43 TM5 hydrophobic
CHEMBL2046866 L216 5.43x44 TM5 hydrophobic
CHEMBL2046866 Q219 5.46x461 TM5 Van der Waals
CHEMBL2046866 Y220 5.47x47 TM5 hydrophobic
CHEMBL2046866 Y220 5.47x47 TM5 Van der Waals
CHEMBL2046866 W276 6.48x48 TM6 hydrophobic
CHEMBL2046866 W276 6.48x48 TM6 Van der Waals
CHEMBL2046866 L279 6.51x51 TM6 hydrophobic
CHEMBL2046866 L279 6.51x51 TM6 Van der Waals
CHEMBL2046866 T280 6.52x52 TM6 polar (hydrogen bond)
CHEMBL2046866 F282 6.54x54 TM6 aromatic (edge-to-face)
CHEMBL2046866 F282 6.54x54 TM6 Van der Waals
CHEMBL2046866 N283 6.55x55 TM6 Van der Waals
CHEMBL2046866 T284 6.56x56 TM6 Van der Waals
CHEMBL2046866 F286 6.58x58 TM6 hydrophobic
CHEMBL2046866 F286 6.58x58 TM6 Van der Waals
CHEMBL2046866 D287 6.59x59 TM6 polar (charge-assisted hydrogen bond)
CHEMBL2046866 A294 ECL3 Van der Waals
CHEMBL2046866 A294 ECL3 hydrophobic
CHEMBL2046866 H298 7.31x30 TM7 Van der Waals
CHEMBL2046866 N299 7.32x31 TM7 Van der Waals
CHEMBL2046866 F302 7.35x34 TM7 hydrophobic
CHEMBL2046866 F302 7.35x34 TM7 Van der Waals

Ligands

CHEMBL2046866

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
Y1 receptor
TM3
3x29 3.29x29 P117
3x32 3.32x32 Q120
3x33 3.33x33 C121
3x36 3.36x36 I124
TM4
4x61 4.60x61 F173
ECL2
45x52 45.52x52 D200
TM5
5x40 5.39x40 T212
5x43 5.42x43 L215
5x44 5.43x44 L216
5x461 5.46x461 Q219
5x47 5.47x47 Y220
TM6
6x48 6.48x48 W276
6x51 6.51x51 L279
6x52 6.52x52 T280
6x54 6.54x54 F282
6x55 6.55x55 N283
6x56 6.56x56 T284
6x58 6.58x58 F286
6x59 6.59x59 D287
TM7
7x30 7.31x30 H298
7x31 7.32x31 N299
7x34 7.35x34 F302