9DZF | pdb_00009dzf

Human GC-A bound to ANP and XX16

• PDB DOI: https://doi.org/10.2210/pdb9DZF/pdb
• EM Map EMD-47328: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Spodoptera frugiperda, Homo sapiens
• Mutation(s): No 


• Deposited: 2024-10-16 Released: 2026-01-21 
• Deposition Author(s): Liu, S., Huang, X.-Y.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Human NPR-A bound to ANP and XX16

Liu, S., Huang, X.-Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A2B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A2B2C1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content 

• Total Structure Weight: 284.24 kDa 
• Atom Count: 8,452 
• Modeled Residue Count: 1,104 
• Deposited Residue Count: 2,528 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Atrial natriuretic peptide receptor 1	A, B	1,029	Homo sapiens	Mutation(s): 0  Gene Names: NPR1, ANPRA EC: 4.6.1.2
UniProt & NIH Common Fund Data Resources
Find proteins for P16066 (Homo sapiens) Explore P16066  Go to UniProtKB:  P16066
PHAROS:  P16066 GTEx:  ENSG00000169418
Glycosylation
Glycosylation Sites: 2		Go to GlyGen: P16066-1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Atrial natriuretic peptide	C	28	Homo sapiens	Mutation(s): 0  Gene Names: NPPA, ANP, PND
UniProt & NIH Common Fund Data Resources
Find proteins for P01160 (Homo sapiens) Explore P01160  Go to UniProtKB:  P01160
PHAROS:  P01160 GTEx:  ENSG00000175206

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
XX16 - Heavy chain	D [auth H]	228	Mus musculus	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
XX16 - Light chain	E [auth L]	214	Mus musculus	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	F [auth D], H [auth F]	2		N-Glycosylation

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G [auth E], I [auth G]	3		N-Glycosylation

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL (Subject of Investigation/LOI)	J [auth A], K [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-21 
Deposition Author(s): Liu, S., Huang, X.-Y.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History  

• Version 1.0: 2026-01-21
  Type: Initial release