21VR | pdb_000021vr

Cryo-EM structure of E.coli BrxBCZ complex bound to ATPrS and Mg2+

PDB DOI: https://doi.org/10.2210/pdb21VR/pdb
EM Map EMD-68039: EMDB EMDataResource

Classification: ANTIVIRAL PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2025-12-31 Released: 2026-10-28
Deposition Author(s): Li, S., Xu, T.H., Zhu, L., Sun, L.T.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.03 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 21VR

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

Literature

Cryo-EM structure of E.coli BrxBCZ complex bound to ATPrS and Mg2+

Li, S., Xu, T.H., Zhu, L., Sun, L.T.

To be published.

Macromolecule Content

Total Structure Weight: 203.66 kDa
Atom Count: 11,339
Modeled Residue Count: 1,387
Deposited Residue Count: 1,761
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable ATP-binding protein BrxC	A, B	743	Escherichia coli	Mutation(s): 0 Gene Names: brxC, EcHS_A0338
UniProt
Find proteins for P0DUF8 (Escherichia coli O9:H4 (strain HS)) Explore P0DUF8 Go to UniProtKB: P0DUF8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0DUF8
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BREX protein BrxB	C	191	Escherichia coli	Mutation(s): 0 Gene Names: brxB, EcHS_A0337
UniProt
Find proteins for P0DUF7 (Escherichia coli O9:H4 (strain HS)) Explore P0DUF7 Go to UniProtKB: P0DUF7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0DUF7
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Alkaline phosphatase-like protein BrxZ	D	84	Escherichia coli	Mutation(s): 0 Gene Names: pglZ, brxZ, EcHS_A0340
UniProt
Find proteins for P0DUG0 (Escherichia coli O9:H4 (strain HS)) Explore P0DUG0 Go to UniProtKB: P0DUG0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0DUG0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AGS (Subject of Investigation/LOI) Query on AGS Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain H [auth B] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] mmCIF format, chain F [auth A] mmCIF format, chain H [auth B]	F [auth A], H [auth B]	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER C₁₀ H₁₆ N₅ O₁₂ P₃ S NLTUCYMLOPLUHL-KQYNXXCUSA-N		Interactions Focus chain F [auth A] Focus chain H [auth B] Interactions & Density Focus chain F [auth A] Focus chain H [auth B]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain G [auth B] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] mmCIF format, chain E [auth A] mmCIF format, chain G [auth B]	E [auth A], G [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain G [auth B] Interactions & Density Focus chain E [auth A] Focus chain G [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.03 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-28

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32271314

Revision History (Full details and data files)

Version 1.0: 2026-10-28
Type: Initial release