PDB
8K6O
Resolution
3.3 Å
Released
July 31, 2024
Receptor
Y1
Class
A
Species
Homo sapiens
Ligand
[Leu31, Pro34]-NPY
Function
Agonist
Reference
—

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Ligand Amino Acid Generic Number Segment Interaction Type
[Leu31, Pro34]-NPY Y100 2.64x63 TM2 Van der Waals
[Leu31, Pro34]-NPY Y100 2.64x63 TM2 polar (hydrogen bond)
[Leu31, Pro34]-NPY Y100 2.64x63 TM2 polar (hydrogen bond with backbone)
[Leu31, Pro34]-NPY T101 2.65x64 TM2 polar (hydrogen bond with backbone)
[Leu31, Pro34]-NPY T101 2.65x64 TM2 Van der Waals
[Leu31, Pro34]-NPY D104 ECL1 Van der Waals
[Leu31, Pro34]-NPY I124 3.36x36 TM3 Van der Waals
[Leu31, Pro34]-NPY I124 3.36x36 TM3 hydrophobic
[Leu31, Pro34]-NPY F184 ECL2 hydrophobic
[Leu31, Pro34]-NPY F184 ECL2 Van der Waals
[Leu31, Pro34]-NPY N186 ECL2 polar (hydrogen bond)
[Leu31, Pro34]-NPY V187 ECL2 polar (hydrogen bond with backbone)
[Leu31, Pro34]-NPY V187 ECL2 Van der Waals
[Leu31, Pro34]-NPY T188 ECL2 polar (hydrogen bond)
[Leu31, Pro34]-NPY F199 45.51x51 ECL2 Van der Waals
[Leu31, Pro34]-NPY R208 5.35x36 TM5 Van der Waals
[Leu31, Pro34]-NPY T212 5.39x40 TM5 polar (hydrogen bond)
[Leu31, Pro34]-NPY T212 5.39x40 TM5 Van der Waals
[Leu31, Pro34]-NPY Q219 5.46x461 TM5 polar (hydrogen bond)
[Leu31, Pro34]-NPY Q219 5.46x461 TM5 polar (hydrogen bond)
[Leu31, Pro34]-NPY N283 6.55x55 TM6 polar (hydrogen bond)
[Leu31, Pro34]-NPY F286 6.58x58 TM6 hydrophobic
[Leu31, Pro34]-NPY D287 6.59x59 TM6 Van der Waals
[Leu31, Pro34]-NPY H290 ECL3 polar (hydrogen bond)
[Leu31, Pro34]-NPY H290 ECL3 polar (hydrogen bond)
[Leu31, Pro34]-NPY A294 ECL3 Van der Waals
[Leu31, Pro34]-NPY C296 ECL3 Van der Waals
[Leu31, Pro34]-NPY H298 7.31x30 TM7 Van der Waals
[Leu31, Pro34]-NPY N299 7.32x31 TM7 Van der Waals
[Leu31, Pro34]-NPY F302 7.35x34 TM7 hydrophobic
[Leu31, Pro34]-NPY F302 7.35x34 TM7 Van der Waals
[Leu31, Pro34]-NPY H306 7.39x38 TM7 polar (hydrogen bond)
[Leu31, Pro34]-NPY H306 7.39x38 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
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
Helix box plot — Download: PNG | SVG 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

GPCRdb(A)
GPCRdb(A)
Y1 receptor
TM2
2x63 2.64x63 Y100
2x64 2.65x64 T101
TM3
3x36 3.36x36 I124
ECL2
45x51 45.51x51 F199
TM5
5x36 5.35x36 R208
5x40 5.39x40 T212
5x461 5.46x461 Q219
TM6
6x55 6.55x55 N283
6x58 6.58x58 F286
6x59 6.59x59 D287
TM7
7x30 7.31x30 H298
7x31 7.32x31 N299
7x34 7.35x34 F302
7x38 7.39x38 H306