9KWF | pdb_00009kwf

Cryo-EM structure of Leptospirillum ferriphilum helicase Dda

PDB DOI: https://doi.org/10.2210/pdb9KWF/pdb
EM Map EMD-62609: EMDB EMDataResource

Classification: DNA BINDING PROTEIN
Organism(s): Leptospirillum ferriphilum ML-04
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-12-05 Released: 2025-12-03
Deposition Author(s): Liu, R.H., Liu, J.D., Zhang, K., He, S.J., Feng, Q.S., Dai, J., Guo, X.R., Fu, Y., Li, Y.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.52 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9KWF

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

Literature

Cryo-EM structure of Leptospirillum ferriphilum helicase Dda

Liu, R.H., Liu, J.D., Zhang, K., He, S.J., Feng, Q.S., Dai, J., Guo, X.R., Fu, Y., Li, Y.

To be published.

Macromolecule Content

Total Structure Weight: 95.19 kDa
Atom Count: 4,968
Modeled Residue Count: 648
Deposited Residue Count: 868
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative deoxyribonuclease	A [auth B], B [auth A]	434	Leptospirillum ferriphilum ML-04	Mutation(s): 0 Gene Names: LFML04_0699
UniProt
Find proteins for J9Z8Z5 (Leptospirillum ferriphilum (strain ML-04)) Explore J9Z8Z5 Go to UniProtKB: J9Z8Z5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	J9Z8Z5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.52 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: 2025-12-03

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-12-03
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.