PDB
8K4O
Resolution
3.0 Å
Released
July 24, 2024
Receptor
ORF74
Class
A
Species
Human herpesvirus 8 type P
Ligand
Function
CXCL1
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
CXCL1 D5 N-term Van der Waals
CXCL1 F6 N-term Van der Waals
CXCL1 L7 N-term Van der Waals
CXCL1 T8 N-term Van der Waals
CXCL1 I9 N-term Van der Waals
CXCL1 L11 N-term hydrophobic
CXCL1 D13 N-term polar (charge-charge)
CXCL1 D13 N-term polar (hydrogen bond)
CXCL1 W17 N-term hydrophobic
CXCL1 E19 N-term Van der Waals
CXCL1 T20 N-term Van der Waals
CXCL1 L21 N-term hydrophobic
CXCL1 G25 N-term Van der Waals
CXCL1 Y26 N-term hydrophobic
CXCL1 D27 N-term Van der Waals
CXCL1 Y28 N-term hydrophobic
CXCL1 S29 N-term Van der Waals
CXCL1 F32 N-term hydrophobic
CXCL1 S33 N-term Van der Waals
CXCL1 L34 N-term Van der Waals
CXCL1 S37 N-term polar (hydrogen bond with backbone)
CXCL1 V38 N-term hydrophobic
CXCL1 C39 N-term hydrophobic
CXCL1 C39 N-term polar (hydrogen bond with backbone)
CXCL1 E40 N-term polar (charge-charge)
CXCL1 Y47 1.32x32 TM1 Van der Waals
CXCL1 L54 1.39x39 TM1 Van der Waals
CXCL1 E103 2.60x60 TM2 polar (charge-charge)
CXCL1 E121 3.28x28 TM3 polar (charge-charge)
CXCL1 I122 3.29x29 TM3 hydrophobic
CXCL1 Y125 3.32x32 TM3 aromatic (pi-cation)
CXCL1 Y125 3.32x32 TM3 hydrophobic
CXCL1 R183 ECL2 polar (hydrogen bond)
CXCL1 V186 ECL2 Van der Waals
CXCL1 P189 ECL2 Van der Waals
CXCL1 V190 ECL2 Van der Waals
CXCL1 M195 ECL2 Van der Waals
CXCL1 Y197 45.51x51 ECL2 Van der Waals
CXCL1 E198 45.52x52 ECL2 Van der Waals
CXCL1 N199 ECL2 Van der Waals
CXCL1 T204 5.31x31 TM5 Van der Waals
CXCL1 R208 5.35x35 TM5 polar (charge-charge)
CXCL1 R212 5.39x39 TM5 polar (charge-charge)
CXCL1 D274 6.58x58 TM6 polar (hydrogen bond)
CXCL1 D274 6.58x58 TM6 polar (charge-charge)
CXCL1 L277 6.61x61 TM6 Van der Waals
CXCL1 R278 6.62x62 TM6 polar (hydrogen bond)
CXCL1 R278 6.62x62 TM6 polar (charge-charge)
CXCL1 D284 ECL3 Van der Waals
CXCL1 S285 7.24x23 TM7 Van der Waals
CXCL1 C286 7.25x24 TM7 Van der Waals
CXCL1 R289 7.28x27 TM7 polar (hydrogen bond)
CXCL1 N293 7.32x31 TM7 polar (hydrogen bond)
CXCL1 L296 7.35x34 TM7 hydrophobic
CXCL1 A297 7.36x35 TM7 hydrophobic
CXCL1 S300 7.39x38 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
ECL1 P N I I ECL1ICL2 S T R S W P K ICL2ECL2 H R S R V V D P V S K Q A M C Y E N ECL2ICL3 K L Q ICL3ECL3 R W I R D ECL3N-term M A A E D F L T I F L D D D E S W N E T L N M S G Y D Y S G N F S L E V S V C E M T T V V N-termC-term T T C-term P Y T W N V G I L S L I F L I N V L G N G L V T Y I F C K H R S R A G A I D I L L L G I C L N S L C L S I S L L A E V L M F L F S T G L C R L E I F F Y Y L Y V Y L D I F S V V C V S L V R Y L L V A Y K Q S L G W V L T S A A L L I A L V L S G D A C R A G N M T A D W R L H V R T V S V T A G F L L P L A L L I L F Y A L T W C V V R R T A R R K V R G V I V A V V L L F F V F C F P Y H V L N L L D T L L R R S C Y T R G L I N V G L A V T S L L Q A L Y S A V V P L I Y S C L G S L F Y G L R Q S A R Q R M F Q S L F M S G
Helix box plot — Download: PNG | SVG G N G L V N I L F I L S L I G V N W T Y 1 L G I C L N S L C L S I S L L A E V L M 2 C V V S F I D L Y V Y L Y Y F F I E L R 3 G W V L T S A A L L I A L V L S G D A C 4 Y F L I L L A L P L L F G A T V S V T R 5 V A V V L L F F V F C F P Y H V L N L L 6 L P V V A S Y L A Q L L S T V A L G V 7

GPCRdb(A)
GPCRdb(A)
ORF74
TM1
1x32 1.32x32 Y47
1x39 1.39x39 L54
TM2
2x60 2.60x60 E103
TM3
3x28 3.28x28 E121
3x29 3.29x29 I122
3x32 3.32x32 Y125
ECL2
45x51 45.51x51 Y197
45x52 45.52x52 E198
TM5
5x31 5.31x31 T204
5x35 5.35x35 R208
5x39 5.39x39 R212
TM6
6x58 6.58x58 D274
6x61 6.61x61 L277
6x62 6.62x62 R278
TM7
7x23 7.24x23 S285
7x24 7.25x24 C286
7x27 7.28x27 R289
7x31 7.32x31 N293
7x34 7.35x34 L296
7x35 7.36x35 A297
7x38 7.39x38 S300