24QJ | pdb_000024qj

Crystal structure of a tailspike depolymerase (Solidus_gp83) from Acinetobacter phage Solidus

PDB DOI: https://doi.org/10.2210/pdb24QJ/pdb

Classification: VIRAL PROTEIN
Organism(s): Acinetobacter phage sp.
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2026-03-16 Released: 2026-03-25
Deposition Author(s): Matyuta, I.O., Shneider, M.M., Timoshina, O.Y., Popov, V.O., Boyko, K.M.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free:
0.277 (Depositor), 0.277 (DCC)
R-Value Work:
0.207 (Depositor), 0.212 (DCC)
R-Value Observed:
0.211 (Depositor)

Starting Model: in silico
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This is version 1.1 of the entry. See complete history.

Literature

Novel Genus of Phages Infecting Acinetobacter baumannii

Shneider, M.M., Timoshina, O.Y., Matyuta, I.O., Lukianova, A.A., Tokmakova, A.D., Shelenkov, A.A., Mikhailova, O.Y., Kasimova, A.A., Boyko, K.M., Prokhorov, N.S., Popov, V.O., Knirel, Y.A., Miroshnikov, K.A.

To be published.

Macromolecule Content

Total Structure Weight: 52.67 kDa
Atom Count: 3,642
Modeled Residue Count: 475
Deposited Residue Count: 486
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tailspike depolymerase	A	486	Acinetobacter phage sp.	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
1PE Query on 1PE Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	PENTAETHYLENE GLYCOL C₁₀ H₂₂ O₆ JLFNLZLINWHATN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
PG4 Query on PG4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free: 0.277 (Depositor), 0.277 (DCC)
R-Value Work: 0.207 (Depositor), 0.212 (DCC)
R-Value Observed: 0.211 (Depositor)

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.224	α = 90
b = 84.224	β = 90
c = 529.394	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-03-25

Deposition Author(s):

Timoshina, O.Y.

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-03-25
Type: Initial release
Version 1.1: 2026-04-01
Changes: Source and taxonomy, Structure summary

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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.