8EN6

Structure of GII.4 norovirus in complex with Nanobody 76

PDB DOI: 10.2210/pdb8EN6/pdb

Classification: VIRAL PROTEIN
Organism(s): Norovirus, Vicugna pacos
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-09-28 Released: 2023-03-15
Deposition Author(s): Kher, G., Sabin, C., Pancera, M., Koromyslova, A., Hansman, G.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.194
R-Value Work: 0.173
R-Value Observed: 0.174

wwPDB Validation 3D Report Full Report

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

Literature

Structure of GII.17 norovirus in complex with Nanobody 76

Kher, G., Sabin, C., Pancera, M., Koromyslova, A., Hansman, G.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GII.4 P domain	A, C [auth B]	307	Norovirus	Mutation(s): 0
UniProt
Find proteins for K4LM89 (Norovirus Hu/GII.4/Sydney/NSW0514/2012/AU) Explore K4LM89 Go to UniProtKB: K4LM89
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	K4LM89
Protein Feature View Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nanobody 76	B [auth C], D	121	Vicugna pacos	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain H [auth A] SDF format, chain F [auth A] SDF format, chain L [auth B] SDF format, chain R [auth D] MOL2 format, chain E [auth A] MOL2 format, chain H [auth A] MOL2 format, chain F [auth A] MOL2 format, chain L [auth B] MOL2 format, chain R [auth D]	E [auth A], F [auth A], H [auth A], L [auth B], R [auth D]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
DMS Query on DMS Download Ideal Coordinates CCD File SDF format, chain N [auth B] MOL2 format, chain N [auth B]	N [auth B]	DIMETHYL SULFOXIDE C₂ H₆ O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N		Ligand Interaction
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain M [auth B] SDF format, chain O [auth B] SDF format, chain P [auth B] SDF format, chain Q [auth D] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain M [auth B] MOL2 format, chain O [auth B] MOL2 format, chain P [auth B] MOL2 format, chain Q [auth D]	I [auth A], J [auth A], K [auth A], M [auth B], O [auth B], I [auth A], J [auth A], K [auth A], M [auth B], O [auth B], P [auth B], Q [auth D]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction
IPA Query on IPA Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain S [auth D] MOL2 format, chain G [auth A] MOL2 format, chain S [auth D]	G [auth A], S [auth D]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Ligand Interaction