Structure information

Y2 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

7X9B

SPECIES

Homo sapiens

RESOLUTION

3.400

PREFERRED CHAIN

R

REFERENCE

10.1126/SCIADV.ABM1232

PUBLICATION DATE

May 18, 2022

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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
neuropeptide Y L40 N-term hydrophobic
neuropeptide Y T107 2.61x60 TM2 polar (hydrogen bond)
neuropeptide Y T107 2.61x60 TM2 polar (hydrogen bond)
neuropeptide Y Y110 2.64x63 TM2 Van der Waals
neuropeptide Y Y110 2.64x63 TM2 hydrophobic
neuropeptide Y Q130 3.32x32 TM3 polar (hydrogen bond)
neuropeptide Y Q130 3.32x32 TM3 polar (hydrogen bond)
neuropeptide Y L183 4.60x61 TM4 Van der Waals
neuropeptide Y L183 4.60x61 TM4 hydrophobic
neuropeptide Y I194 ECL2 Van der Waals
neuropeptide Y I195 ECL2 Van der Waals
neuropeptide Y I195 ECL2 hydrophobic
neuropeptide Y T204 45.51x51 ECL2 Van der Waals
neuropeptide Y E211 ECL2 Van der Waals
neuropeptide Y Y219 5.38x39 TM5 Van der Waals
neuropeptide Y Q288 6.55x55 TM6 polar (hydrogen bond)
neuropeptide Y Q288 6.55x55 TM6 polar (hydrogen bond with backbone)
neuropeptide Y V291 6.58x58 TM6 Van der Waals
neuropeptide Y V291 6.58x58 TM6 hydrophobic
neuropeptide Y D292 6.59x59 TM6 Van der Waals
neuropeptide Y Q296 ECL3 Van der Waals
neuropeptide Y L298 ECL3 Van der Waals
neuropeptide Y L298 ECL3 polar (hydrogen bond with backbone)
neuropeptide Y D299 ECL3 polar (charge-assisted hydrogen bond)
neuropeptide Y L300 ECL3 Van der Waals
neuropeptide Y K301 ECL3 Van der Waals
neuropeptide Y Y303 7.31x30 TM7 hydrophobic
neuropeptide Y Y303 7.31x30 TM7 Van der Waals
neuropeptide Y F307 7.35x34 TM7 hydrophobic
neuropeptide Y F307 7.35x34 TM7 Van der Waals
neuropeptide Y H311 7.39x38 TM7 Van der Waals

Ligands

neuropeptide Y

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Residue Diagrams

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


GPCRdb(A)
GPCRdb(A)
Y2 receptor
TM2
2x60 2.61x60 T107
2x63 2.64x63 Y110
TM3
3x32 3.32x32 Q130
TM4
4x61 4.60x61 L183
ECL2
45x51 45.51x51 T204
TM5
5x39 5.38x39 Y219
TM6
6x55 6.55x55 Q288
6x58 6.58x58 V291
6x59 6.59x59 D292
TM7
7x30 7.31x30 Y303
7x34 7.35x34 F307
7x38 7.39x38 H311