PDB
6LFO
Resolution
3.4 Å
Released
Sept. 2, 2020
Receptor
CXCR2
Class
A
Species
Homo sapiens
Ligand
Interleukin-8
Function
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 polar (hydrogen bond with backbone)
Interleukin-8 S27 N-term Van der Waals
Interleukin-8 T28 N-term Van der Waals
Interleukin-8 L29 N-term Van der Waals
Interleukin-8 P31 N-term Van der Waals
Interleukin-8 F32 N-term Van der Waals
Interleukin-8 F32 N-term polar (hydrogen bond with backbone)
Interleukin-8 L33 N-term hydrophobic
Interleukin-8 L33 N-term Van der Waals
Interleukin-8 L34 N-term hydrophobic
Interleukin-8 L34 N-term Van der Waals
Interleukin-8 D35 N-term polar (hydrogen bond with backbone)
Interleukin-8 D35 N-term polar (charge-assisted hydrogen bond)
Interleukin-8 A36 N-term Van der Waals
Interleukin-8 A36 N-term hydrophobic
Interleukin-8 A37 N-term Van der Waals
Interleukin-8 P38 N-term hydrophobic
Interleukin-8 P38 N-term Van der Waals
Interleukin-8 C39 N-term Van der Waals
Interleukin-8 E40 N-term Van der Waals
Interleukin-8 W104 2.60x60 TM2 hydrophobic
Interleukin-8 K108 2.64x64 TM2 Van der Waals
Interleukin-8 V187 ECL2 Van der Waals
Interleukin-8 V187 ECL2 hydrophobic
Interleukin-8 Y197 45.51x51 ECL2 polar (hydrogen bond)
Interleukin-8 Y197 45.51x51 ECL2 Van der Waals
Interleukin-8 G201 ECL2 polar (hydrogen bond with backbone)
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 T204 5.31x32 TM5 Van der Waals
Interleukin-8 D274 6.58x58 TM6 Van der Waals
Interleukin-8 R278 6.62x62 TM6 polar (charge-assisted hydrogen bond)
Interleukin-8 R289 7.28x27 TM7 polar (charge-assisted hydrogen bond)

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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
TM6
6x58 6.58x58 D274
6x62 6.62x62 R278
TM7
7x27 7.28x27 R289