9DR0 | pdb_00009dr0

Hare calicivirus protruding domain

PDB DOI: https://doi.org/10.2210/pdb9DR0/pdb

Classification: VIRAL PROTEIN
Organism(s): Hare calicivirus Australia-1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-09-24 Released: 2024-10-30
Deposition Author(s): Reese, T., Pancera, M., Hansman, G.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.180 (Depositor), 0.180 (DCC)
R-Value Work:
0.161 (Depositor), 0.161 (DCC)
R-Value Observed:
0.162 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structural analysis of a non-pathogenic hare calicivirus capsid bound to a histo-blood group antigen co-factor.

Hansman, G.S., Reese, T., Pancera, M., Rudd, P.A., Masic, V., Haselhorst, T., von Itzstein, M.

(2024) J Virol 98: e0167524-e0167524

PubMed: 39513720 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1128/jvi.01675-24
Primary Citation of Related Structures:
9DQC, 9DR0

Organizational Affiliation

Institute for Biomedicine and Glycomics, Griffith University, Gold Coast Campus, Gold Coast, Queensland, Australia.

Macromolecule Content

Total Structure Weight: 70.56 kDa
Atom Count: 5,432
Modeled Residue Count: 667
Deposited Residue Count: 678
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hare calicivirus protruding domain	A, B	339	Hare calicivirus Australia-1	Mutation(s): 0
UniProt
Find proteins for A0A4D6I9J0 (Hare calicivirus Australia-2) Explore A0A4D6I9J0 Go to UniProtKB: A0A4D6I9J0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A4D6I9J0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth B] mmCIF format, chain J [auth B]	C [auth A] D [auth A] E [auth A] H [auth B] I [auth B] C [auth A], D [auth A], E [auth A], H [auth B], I [auth B], J [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B]
ACY Query on ACY Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth B] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] mmCIF format, chain F [auth A] mmCIF format, chain G [auth B]	F [auth A], G [auth B]	ACETIC ACID C₂ H₄ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth B] Interactions & Density Focus chain F [auth A] Focus chain G [auth B]