10WC | pdb_000010wc

KpSwz DUF4062 (Hexamer, catalytic mutant E97A)

PDB DOI: https://doi.org/10.2210/pdb10WC/pdb
EM Map EMD-75498: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Klebsiella pneumoniae
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2026-02-10 Released: 2026-05-20
Deposition Author(s): Osinski, A., Lopez, V.A., Tagliabracci, V.S.
Funding Organization(s): Howard Hughes Medical Institute (HHMI), Welch Foundation, Cancer Prevention and Research Institute of Texas (CPRIT), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Cancer Institute (NIH/NCI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.42 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

Literature

TIR-like NADases act in bacterial immunity and the RNA vault

Osinski, A., Mayro, B., Lopez, V.A., Schrad, J., Choi, H., Tomchick, D.R., Pawlowski, K., Forsberg, K., Shahmoradian, S.H., Tagliabracci, V.S.

(2026) bioRxiv

DOI: https://doi.org/10.64898/2026.05.01.722283

Macromolecule Content

Total Structure Weight: 225.44 kDa
Atom Count: 8,501
Modeled Residue Count: 1,032
Deposited Residue Count: 1,956
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
KpSwz DUF4062	A, B, C, D, E A, B, C, D, E, F	326	Klebsiella pneumoniae	Mutation(s): 0 Gene Names: MS5452_35130 EC: 3.2.2.5

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.42 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX	2.0_5885
MODEL REFINEMENT	ISOLDE

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-05-20

Deposition Author(s):

Tagliabracci, V.S.

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--
Welch Foundation	United States	I-1911
Cancer Prevention and Research Institute of Texas (CPRIT)	United States	RR150033
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	DP2GM137419
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM158265
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	K00CA264162

Revision History (Full details and data files)

Version 1.0: 2026-05-20
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.