Structure information

Y2 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

8K6N

SPECIES

Homo sapiens

RESOLUTION

3.200

PREFERRED CHAIN

E

REFERENCE

PUBLICATION DATE

July 31, 2024

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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 polar (hydrogen bond with backbone)
neuropeptide Y L40 N-term Van der Waals
neuropeptide Y I41 N-term Van der Waals
neuropeptide Y I41 N-term hydrophobic
neuropeptide Y C103 2.57x56 TM2 Van der Waals
neuropeptide Y T107 2.61x60 TM2 Van der Waals
neuropeptide Y T107 2.61x60 TM2 polar (hydrogen bond)
neuropeptide Y Y110 2.64x63 TM2 hydrophobic
neuropeptide Y Y110 2.64x63 TM2 Van der Waals
neuropeptide Y T111 2.65x64 TM2 Van der Waals
neuropeptide Y Q130 3.32x32 TM3 polar (hydrogen bond)
neuropeptide Y Q130 3.32x32 TM3 Van der Waals
neuropeptide Y E188 ECL2 Van der Waals
neuropeptide Y I192 ECL2 hydrophobic
neuropeptide Y I192 ECL2 Van der Waals
neuropeptide Y E193 ECL2 Van der Waals
neuropeptide Y E193 ECL2 polar (hydrogen bond with backbone)
neuropeptide Y I194 ECL2 hydrophobic
neuropeptide Y I194 ECL2 Van der Waals
neuropeptide Y A202 ECL2 Van der Waals
neuropeptide Y A202 ECL2 hydrophobic
neuropeptide Y T204 45.51x51 ECL2 Van der Waals
neuropeptide Y E205 45.52x52 ECL2 Van der Waals
neuropeptide Y K206 ECL2 Van der Waals
neuropeptide Y W207 ECL2 polar (hydrogen bond with backbone)
neuropeptide Y W207 ECL2 Van der Waals
neuropeptide Y E210 ECL2 Van der Waals
neuropeptide Y Y219 5.38x39 TM5 hydrophobic
neuropeptide Y Y219 5.38x39 TM5 Van der Waals
neuropeptide Y S223 5.42x43 TM5 polar (hydrogen bond)
neuropeptide Y H285 6.52x52 TM6 polar (hydrogen bond)
neuropeptide Y H285 6.52x52 TM6 Van der Waals
neuropeptide Y Q288 6.55x55 TM6 polar (hydrogen bond with backbone)
neuropeptide Y Q288 6.55x55 TM6 Van der Waals
neuropeptide Y V291 6.58x58 TM6 hydrophobic
neuropeptide Y V291 6.58x58 TM6 Van der Waals
neuropeptide Y D292 6.59x59 TM6 polar (charge-assisted hydrogen bond)
neuropeptide Y S295 ECL3 polar (hydrogen bond with backbone)
neuropeptide Y S295 ECL3 Van der Waals
neuropeptide Y V297 ECL3 hydrophobic
neuropeptide Y V297 ECL3 Van der Waals
neuropeptide Y L300 ECL3 hydrophobic
neuropeptide Y L300 ECL3 Van der Waals
neuropeptide Y K301 ECL3 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
2x56 2.57x56 C103
2x60 2.61x60 T107
2x63 2.64x63 Y110
2x64 2.65x64 T111
TM3
3x32 3.32x32 Q130
ECL2
45x51 45.51x51 T204
45x52 45.52x52 E205
TM5
5x39 5.38x39 Y219
5x43 5.42x43 S223
TM6
6x52 6.52x52 H285
6x55 6.55x55 Q288
6x58 6.58x58 V291
6x59 6.59x59 D292
TM7
7x34 7.35x34 F307
7x38 7.39x38 H311