9KO4 | pdb_00009ko4

A Cryo_EM structure of CCR7 complex with CCL21

• PDB DOI: https://doi.org/10.2210/pdb9KO4/pdb
• EM Map EMD-62469: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN/IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2024-11-19 Released: 2025-11-26 
• Deposition Author(s): Yuan, Q., Duan, J., Cao, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

A Cryo_EM structure of CCR7 complex with CCL21

Yuan, Q., Duan, J., Cao, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A1B1C1D1E1F1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 162.86 kDa 
• Atom Count: 8,908 
• Modeled Residue Count: 1,177 
• Deposited Residue Count: 1,465 
• Unique protein chains: 6

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C-C motif chemokine 21	A [auth L]	78	Homo sapiens	Mutation(s): 0  Gene Names: CCL21, SCYA21, UNQ784/PRO1600
UniProt & NIH Common Fund Data Resources
Find proteins for O00585 (Homo sapiens) Explore O00585  Go to UniProtKB:  O00585
PHAROS:  O00585 GTEx:  ENSG00000137077

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
C-C chemokine receptor type 7	B [auth R]	344	Homo sapiens	Mutation(s): 0  Gene Names: CCR7, CMKBR7, EBI1, EVI1
UniProt & NIH Common Fund Data Resources
Find proteins for P32248 (Homo sapiens) Explore P32248  Go to UniProtKB:  P32248
PHAROS:  P32248 GTEx:  ENSG00000126353

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	C [auth A]	354	Homo sapiens	Mutation(s): 0  Gene Names: GNAI1 EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens) Explore P63096  Go to UniProtKB:  P63096
PHAROS:  P63096 GTEx:  ENSG00000127955

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	D [auth B]	370	Homo sapiens	Mutation(s): 0  Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens) Explore P62873  Go to UniProtKB:  P62873
PHAROS:  P62873 GTEx:  ENSG00000078369

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	E [auth G]	70	Homo sapiens	Mutation(s): 0  Gene Names: GNG2
UniProt & NIH Common Fund Data Resources
Find proteins for P59768 (Homo sapiens) Explore P59768  Go to UniProtKB:  P59768
PHAROS:  P59768 GTEx:  ENSG00000186469

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
SCFV16	F [auth H]	249	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-26 
Deposition Author(s): Yuan, Q., Duan, J., Cao, Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-11-26
  Type: Initial release