PDB
6LFO
Resolution
3.4 Å
Released
Sept. 2, 2020
Receptor
CXCR2
Class
A
Species
Homo sapiens
Ligand
Function
Interleukin-8
Agonist
Reference
10.1038/S41586-020-2492-5

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Ligand Amino Acid Generic Number Segment Interaction Type
Interleukin-8 S27 N-term Van der Waals
Interleukin-8 T28 N-term Van der Waals
Interleukin-8 L29 N-term hydrophobic
Interleukin-8 P31 N-term Van der Waals
Interleukin-8 F32 N-term polar (hydrogen bond with backbone)
Interleukin-8 F32 N-term hydrophobic
Interleukin-8 L33 N-term Van der Waals
Interleukin-8 L34 N-term hydrophobic
Interleukin-8 D35 N-term polar (hydrogen bond)
Interleukin-8 D35 N-term polar (charge-charge)
Interleukin-8 A36 N-term hydrophobic
Interleukin-8 A37 N-term hydrophobic
Interleukin-8 P38 N-term hydrophobic
Interleukin-8 C39 N-term Van der Waals
Interleukin-8 W104 2.60x60 TM2 Van der Waals
Interleukin-8 K108 2.64x64 TM2 hydrophobic
Interleukin-8 V187 ECL2 hydrophobic
Interleukin-8 S189 ECL2 Van der Waals
Interleukin-8 Y197 45.51x51 ECL2 hydrophobic
Interleukin-8 G201 ECL2 Van der Waals
Interleukin-8 N202 ECL2 Van der Waals
Interleukin-8 T204 5.31x32 TM5 polar (hydrogen bond)
Interleukin-8 A205 5.32x33 TM5 Van der Waals
Interleukin-8 R208 5.35x36 TM5 polar (charge-charge)
Interleukin-8 R212 5.39x40 TM5 polar (charge-charge)
Interleukin-8 D274 6.58x58 TM6 Van der Waals
Interleukin-8 R278 6.62x62 TM6 polar (charge-charge)
Interleukin-8 R278 6.62x62 TM6 polar (hydrogen bond)
Interleukin-8 E284 ECL3 polar (charge-charge)
Interleukin-8 R289 7.28x27 TM7 polar (charge-charge)
Interleukin-8 R289 7.28x27 TM7 hydrophobic
Interleukin-8 R289 7.28x27 TM7 polar (hydrogen bond)
Interleukin-8 L296 7.35x34 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
CXCR2
TM2
2x60 2.60x60 W104
2x64 2.64x64 K108
ECL2
45x51 45.51x51 Y197
TM5
5x32 5.31x32 T204
5x33 5.32x33 A205
5x36 5.35x36 R208
5x40 5.39x40 R212
TM6
6x58 6.58x58 D274
6x62 6.62x62 R278
TM7
7x27 7.28x27 R289
7x34 7.35x34 L296