PDB
9KO4
Resolution
3.3 Å
Released
Nov. 26, 2025
Receptor
CCR7
Class
A
Species
Homo sapiens
Ligand
CCL21
Function
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
CCL21 Y41 N-term aromatic (face-to-face)
CCL21 Y41 N-term Van der Waals
CCL21 Y41 N-term polar (hydrogen bond)
CCL21 F44 N-term Van der Waals
CCL21 F44 N-term hydrophobic
CCL21 E45 N-term polar (hydrogen bond with backbone)
CCL21 E45 N-term Van der Waals
CCL21 S46 N-term Van der Waals
CCL21 S46 N-term polar (hydrogen bond)
CCL21 L47 N-term hydrophobic
CCL21 L47 N-term Van der Waals
CCL21 C48 N-term Van der Waals
CCL21 C48 N-term polar (hydrogen bond with backbone)
CCL21 S49 N-term polar (hydrogen bond with backbone)
CCL21 S49 N-term Van der Waals
CCL21 K50 N-term polar (hydrogen bond with backbone)
CCL21 K50 N-term polar (charge-assisted hydrogen bond)
CCL21 W114 2.60x60 TM2 Van der Waals
CCL21 F133 3.29x29 TM3 Van der Waals
CCL21 Y136 3.32x32 TM3 polar (hydrogen bond)
CCL21 S203 ECL2 polar (hydrogen bond)
CCL21 S203 ECL2 Van der Waals
CCL21 S203 ECL2 polar (hydrogen bond with backbone)
CCL21 S211 45.51x51 ECL2 Van der Waals
CCL21 S211 45.51x51 ECL2 polar (hydrogen bond)
CCL21 L212 45.52x52 ECL2 Van der Waals
CCL21 L212 45.52x52 ECL2 hydrophobic
CCL21 I213 ECL2 Van der Waals
CCL21 T214 ECL2 Van der Waals
CCL21 T214 ECL2 polar (hydrogen bond with backbone)
CCL21 V217 5.32x33 TM5 Van der Waals
CCL21 V217 5.32x33 TM5 hydrophobic
CCL21 F220 5.35x36 TM5 hydrophobic
CCL21 F220 5.35x36 TM5 Van der Waals
CCL21 N290 6.62x62 TM6 Van der Waals
CCL21 S296 ECL3 Van der Waals
CCL21 C298 7.25x24 TM7 Van der Waals
CCL21 S301 7.28x27 TM7 Van der Waals
CCL21 N305 7.32x31 TM7 Van der Waals
CCL21 Y308 7.35x34 TM7 polar (hydrogen bond)
CCL21 Y308 7.35x34 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
CCR7
TM2
2x60 2.60x60 W114
TM3
3x29 3.29x29 F133
3x32 3.32x32 Y136
ECL2
45x51 45.51x51 S211
45x52 45.52x52 L212
TM5
5x36 5.35x36 F220
TM6
6x62 6.62x62 N290
TM7
7x24 7.25x24 C298
7x27 7.28x27 S301
7x31 7.32x31 N305
7x34 7.35x34 Y308