8WK6 | pdb_00008wk6

Human AGT1-rBAT complex in the apo-state

PDB DOI: https://doi.org/10.2210/pdb8WK6/pdb
EM Map EMD-37596: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No
Membrane Protein: Yes PDBTM MemProtMD

Deposited: 2023-09-27 Released: 2025-04-02
Deposition Author(s): Yan, R.H., Shi, T.H., Dong, J.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8WK6

This is version 1.0 of the entry. See complete history.

Literature

Human AGT1-rBAT complex in the apo-state

Yan, R.H., Shi, T.H., Dong, J.

To be published.

Macromolecule Content

Total Structure Weight: 282.36 kDa
Atom Count: 17,460
Modeled Residue Count: 2,144
Deposited Residue Count: 2,468
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amino acid transporter heavy chain SLC3A1	A [auth C], C [auth D]	736	Homo sapiens	Mutation(s): 0 Gene Names: SLC3A1, NBAT Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q07837 (Homo sapiens) Explore Q07837 Go to UniProtKB: Q07837
PHAROS: Q07837 GTEx: ENSG00000138079
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q07837
Glycosylation
Glycosylation Sites: 5	Glycosylation Focus chain A [auth C] Focus chain C [auth D]	Go to GlyGen: Q07837-1
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Solute carrier family 7 member 13	B, D [auth A]	498	Homo sapiens	Mutation(s): 0 Gene Names: SLC7A13, AGT1, XAT2 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TCU3 (Homo sapiens) Explore Q8TCU3 Go to UniProtKB: Q8TCU3
GTEx: ENSG00000164893
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8TCU3
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain O [auth C] SDF format, chain P [auth D] MOL2 format, chain O [auth C] MOL2 format, chain P [auth D] mmCIF format, chain O [auth C] mmCIF format, chain P [auth D]	O [auth C], P [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain O [auth C] Focus chain P [auth D] Interactions & Density Focus chain O [auth C] Focus chain P [auth D]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-04-02

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2025-04-02
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.