28NU | pdb_000028nu

Human Adenovirus type C5 knob protein with the KO1 mutation

PDB DOI: https://doi.org/10.2210/pdb28NU/pdb

Classification: VIRAL PROTEIN
Organism(s): Human adenovirus 5
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2026-02-10 Released: 2026-03-25
Deposition Author(s): Rizkallah, P.J., Swift, E.A., Parker, A.L.
Funding Organization(s): Cancer Research UK

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.257 (Depositor), 0.261 (DCC)
R-Value Work:
0.214 (Depositor), 0.218 (DCC)
R-Value Observed:
0.216 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 28NU

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

Literature

Human Adenovirus type C5 knob protein with the KO1 mutation

Rizkallah, P.J., Swift, E.A., Parker, A.L.

To be published.

Macromolecule Content

Total Structure Weight: 123.19 kDa
Atom Count: 9,140
Modeled Residue Count: 1,116
Deposited Residue Count: 1,116
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fiber protein	A, B, C, D, E A, B, C, D, E, F	186	Human adenovirus 5	Mutation(s): 0 Gene Names: L5
UniProt
Find proteins for P11818 (Human adenovirus C serotype 5) Explore P11818 Go to UniProtKB: P11818
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P11818
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain S [auth F] SDF format, chain Q [auth E] SDF format, chain P [auth E] SDF format, chain O [auth D] SDF format, chain N [auth D] SDF format, chain L [auth C] SDF format, chain J [auth B] SDF format, chain I [auth B] SDF format, chain H [auth A] MOL2 format, chain S [auth F] MOL2 format, chain Q [auth E] MOL2 format, chain P [auth E] MOL2 format, chain O [auth D] MOL2 format, chain N [auth D] MOL2 format, chain L [auth C] MOL2 format, chain J [auth B] MOL2 format, chain I [auth B] MOL2 format, chain H [auth A] mmCIF format, chain S [auth F] mmCIF format, chain Q [auth E] mmCIF format, chain P [auth E] mmCIF format, chain O [auth D] mmCIF format, chain N [auth D] mmCIF format, chain L [auth C] mmCIF format, chain J [auth B] mmCIF format, chain I [auth B] mmCIF format, chain H [auth A]	H [auth A] I [auth B] J [auth B] L [auth C] N [auth D] H [auth A], I [auth B], J [auth B], L [auth C], N [auth D], O [auth D], P [auth E], Q [auth E], S [auth F]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain I [auth B] Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain O [auth D] Focus chain P [auth E] Focus chain Q [auth E] Focus chain S [auth F] Interactions & Density Focus chain H [auth A] Focus chain I [auth B] Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain O [auth D] Focus chain P [auth E] Focus chain Q [auth E] Focus chain S [auth F]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain R [auth F] SDF format, chain K [auth C] MOL2 format, chain R [auth F] MOL2 format, chain K [auth C] mmCIF format, chain R [auth F] mmCIF format, chain K [auth C]	K [auth C], R [auth F]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain K [auth C] Focus chain R [auth F] Interactions & Density Focus chain K [auth C] Focus chain R [auth F]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain M [auth D] SDF format, chain G [auth A] MOL2 format, chain M [auth D] MOL2 format, chain G [auth A] mmCIF format, chain M [auth D] mmCIF format, chain G [auth A]	G [auth A], M [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain M [auth D] Interactions & Density Focus chain G [auth A] Focus chain M [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.257 (Depositor), 0.261 (DCC)
R-Value Work: 0.214 (Depositor), 0.218 (DCC)
R-Value Observed: 0.216 (Depositor)

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 139.976	α = 90
b = 139.976	β = 90
c = 139.786	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-03-25

Deposition Author(s):

Rizkallah, P.J.

Funding Organization	Location	Grant Number
Cancer Research UK	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2026-03-25
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.