9KY1 | pdb_00009ky1

Structure of human B0AT1-ACE2 complex with compound1

• PDB DOI: https://doi.org/10.2210/pdb9KY1/pdb
• EM Map EMD-62635: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-12-07 Released: 2025-12-10 
• Deposition Author(s): Imazu, T., Miyaguchi, I., Hiraizumi, M.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure-guided development of a potent human B0AT1 inhibitor that shows activity in a model mouse of Phenylketonuria

Imazu, T., Akashi, T., Hiraizumi, M., Inui, Y., Sasaki, W., Takahashi, T., Todoroki, H., Kumanomidou, T., Hisano, H., Asada, H., Kusakizako, T., Nishizawa, T., Iwata, S., Nureki, O., Miyaguchi, I.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 337.54 kDa 
• Atom Count: 22,062 
• Modeled Residue Count: 2,696 
• Deposited Residue Count: 2,920 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sodium-dependent neutral amino acid transporter B(0)AT1	A, C	654	Homo sapiens	Mutation(s): 0  Gene Names: SLC6A19, B0AT1
UniProt & NIH Common Fund Data Resources
Find proteins for Q695T7 (Homo sapiens) Explore Q695T7  Go to UniProtKB:  Q695T7
PHAROS:  Q695T7 GTEx:  ENSG00000174358
Glycosylation
Glycosylation Sites: 2		Go to GlyGen: Q695T7-1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Angiotensin-converting enzyme 2	B, D	806	Homo sapiens	Mutation(s): 0  Gene Names: ACE2, UNQ868/PRO1885 EC: 3.4.17.23 (PDB Primary Data), 3.4.17 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BYF1 (Homo sapiens) Explore Q9BYF1  Go to UniProtKB:  Q9BYF1
PHAROS:  Q9BYF1 GTEx:  ENSG00000130234
Glycosylation
Glycosylation Sites: 5		Go to GlyGen: Q9BYF1-1

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E, F, G, H, I, J, K, L, M, N, O, P	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	Q [auth A], R [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	REFMAC	5.8.0267

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-10 
Deposition Author(s): Imazu, T., Miyaguchi, I., Hiraizumi, M.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-12-10
  Type: Initial release