10BE | pdb_000010be

Human AGO2 bound to a miR-20a guide and a position 10-11 mismatched target

PDB DOI: https://doi.org/10.2210/pdb10BE/pdb
EM Map EMD-75039: EMDB EMDataResource

Classification: RNA BINDING PROTEIN
Organism(s): Homo sapiens
Expression System: Trichoplusia ni
Mutation(s): No

Deposited: 2026-01-09 Released: 2026-06-03
Deposition Author(s): Savidge, A., Nakanishi, K.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.02 Å
Aggregation State: CELL
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 10BE

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

Literature

Human AGO2 bound to a miR-20a guide and position 10-11 mismatched target

Zhang, H., Annasaheb-Adhav, V., Kehling, C., Savidge, A., Shen, Z., Fu, T.M., Nakanishi, K.

To be published.

Macromolecule Content

Total Structure Weight: 112 kDa
Atom Count: 6,757
Modeled Residue Count: 811
Deposited Residue Count: 914
Unique protein chains: 1
Unique nucleic acid chains: 2

Macromolecules

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein argonaute-2	C [auth A]	873	Homo sapiens	Mutation(s): 0 Gene Names: AGO2, EIF2C2 EC: 3.1.26
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKV8 (Homo sapiens) Explore Q9UKV8 Go to UniProtKB: Q9UKV8
PHAROS: Q9UKV8 GTEx: ENSG00000123908
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9UKV8
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism	Image
Entity ID: 1
Guide RNA	A [auth B]	23	Homo sapiens
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism	Image
Entity ID: 2
Target RNA	B [auth C]	18	Homo sapiens
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.02 Å
Aggregation State: CELL
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487
RECONSTRUCTION	cryoSPARC

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-06-03

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2026-06-03
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.