PDB
7YKD
Resolution
2.8 Å
Released
April 19, 2023
Receptor
chemerin
Class
A
Species
Homo sapiens
Ligand
chemerin C-terminal peptide
Function
Agonist
Reference
10.1073/PNAS.2214324120

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Ligand Amino Acid Generic Number Segment Interaction Type
chemerin C-terminal peptide F88 2.53x53 TM2 hydrophobic
chemerin C-terminal peptide Y103 ECL1 hydrophobic
chemerin C-terminal peptide N116 3.29x29 TM3 polar (hydrogen bond)
chemerin C-terminal peptide N116 3.29x29 TM3 Van der Waals
chemerin C-terminal peptide L119 3.32x32 TM3 hydrophobic
chemerin C-terminal peptide L119 3.32x32 TM3 Van der Waals
chemerin C-terminal peptide I120 3.33x33 TM3 Van der Waals
chemerin C-terminal peptide I120 3.33x33 TM3 hydrophobic
chemerin C-terminal peptide M123 3.36x36 TM3 Van der Waals
chemerin C-terminal peptide S174 4.60x61 TM4 Van der Waals
chemerin C-terminal peptide R178 ECL2 polar (charge-assisted hydrogen bond)
chemerin C-terminal peptide L183 ECL2 hydrophobic
chemerin C-terminal peptide L183 ECL2 Van der Waals
chemerin C-terminal peptide C189 45.50x50 ECL2 Van der Waals
chemerin C-terminal peptide F190 45.51x51 ECL2 Van der Waals
chemerin C-terminal peptide F190 45.51x51 ECL2 hydrophobic
chemerin C-terminal peptide N191 45.52x52 ECL2 polar (hydrogen bond)
chemerin C-terminal peptide N191 45.52x52 ECL2 polar (hydrogen bond with backbone)
chemerin C-terminal peptide N191 45.52x52 ECL2 Van der Waals
chemerin C-terminal peptide R224 5.42x43 TM5 polar (charge-assisted hydrogen bond)
chemerin C-terminal peptide Y276 6.51x51 TM6 Van der Waals
chemerin C-terminal peptide Y276 6.51x51 TM6 hydrophobic
chemerin C-terminal peptide E283 6.58x58 TM6 polar (charge-assisted hydrogen bond)
chemerin C-terminal peptide H286 ECL3 aromatic (face-to-edge)
chemerin C-terminal peptide H286 ECL3 Van der Waals
chemerin C-terminal peptide H286 ECL3 polar (hydrogen bond)
chemerin C-terminal peptide F294 7.31x30 TM7 Van der Waals
chemerin C-terminal peptide F294 7.31x30 TM7 aromatic (face-to-face)
chemerin C-terminal peptide S295 7.32x31 TM7 Van der Waals
chemerin C-terminal peptide L298 7.35x34 TM7 hydrophobic
chemerin C-terminal peptide L298 7.35x34 TM7 Van der Waals
chemerin C-terminal peptide T302 7.39x38 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
ICL1 M K K ICL1ECL1 Y H W V F ECL1ICL2 P V W S Q N H R ICL2ECL2 D T A N L H G K I S C F N N F S L S T P G S S S W P ECL2ICL3 L A K T ICL3ECL3 T A M ECL3N-term M R M E D E D Y N T S I S Y G D E Y P D Y L D S I V V L E D L S N-termC-term S R L V N A L S E D T G H S S Y P S H R S F T K M S S M N E R T S M N E R E T G M L C-term P L E A R V T R I F L V V V Y S I V C F L G I L G N G L V I I I A T F K T V N M V W F L N L A V A D F L F N V F L P I H I T Y A A M D G T A M C K I S N F L L I H N M F T S V F L L T I I S S D R C I S V L L S V R L A Y M A C M V I W V L A F F L S S P S L V F R T H S Q M D P V G Y S R H M V V T V T R F L C G F L V P V L I I T A C Y L T I V C K L Q R N R K K P F K I I V T I I I T F F L C W C P Y H T L N L L E L H H P G S V F S L G L P L A T A L A I A N S C M N P I L Y V F M G Q D K V A F K K F L F
Helix box plot — Download: PNG | SVG G N G L I G L F C V I S Y V V V L F I R 1 L N L A V A D F L F N V F L P I H I T Y 2 I T L L F V S T F M N H I L L F N S I K 3 A Y M A C M V I W V L A F F L S S P S 4 Y C A T I I L V P V L F G C L F R T V T V 5 V T I I I T F F L C W C P Y H T L N L L 6 I P N M C S N A I A L A T A L P L G L 7

GPCRdb(A)
GPCRdb(A)
chemerin receptor
TM2
2x53 2.53x53 F88
TM3
3x29 3.29x29 N116
3x32 3.32x32 L119
3x33 3.33x33 I120
3x36 3.36x36 M123
TM4
4x61 4.60x61 S174
ECL2
45x50 45.50x50 C189
45x51 45.51x51 F190
45x52 45.52x52 N191
TM5
5x43 5.42x43 R224
TM6
6x51 6.51x51 Y276
6x58 6.58x58 E283
TM7
7x30 7.31x30 F294
7x31 7.32x31 S295
7x34 7.35x34 L298
7x38 7.39x38 T302