7BWU

Restructuring hemagglutinin-neuraminidase (HN) of Newcastle disease virus produced from Oryza sativa

PDB DOI: https://doi.org/10.2210/pdb7BWU/pdb

Classification: VIRAL PROTEIN
Organism(s): avian paramyxovirus 1
Expression System: Oryza sativa
Mutation(s): Yes

Deposited: 2020-04-16 Released: 2021-04-21
Deposition Author(s): Ma, F.S., Zhang, G.P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.195
R-Value Work: 0.167
R-Value Observed: 0.168

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Restructuring a dimer antigen in transgenic rice system for high efficient B cell activation: Development of a super effective vaccine against Newcastle Disease Virus

Ma, F.S., Zhang, E.Q., Xu, Q.R., Guo, J.Q., Zhang, G.P.

To be published.

Macromolecule Content

Total Structure Weight: 233.93 kDa
Atom Count: 14,942
Modelled Residue Count: 1,779
Deposited Residue Count: 2,144
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin-neuraminidase	A [auth B], B [auth D], C [auth A], D [auth C]	536	avian paramyxovirus 1	Mutation(s): 1 Gene Names: HN
UniProt
Find proteins for I7EFR1 (Avian orthoavulavirus 1) Explore I7EFR1 Go to UniProtKB: I7EFR1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	I7EFR1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain H [auth D] SDF format, chain K [auth A] SDF format, chain N [auth C] MOL2 format, chain E [auth B] MOL2 format, chain H [auth D] MOL2 format, chain K [auth A] MOL2 format, chain N [auth C]	E [auth B], H [auth D], K [auth A], N [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain E [auth B] Focus chain H [auth D] Focus chain K [auth A] Focus chain N [auth C] Interactions & Density Focus chain E [auth B] Focus chain H [auth D] Focus chain K [auth A] Focus chain N [auth C]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain I [auth D] SDF format, chain L [auth A] SDF format, chain O [auth C] MOL2 format, chain F [auth B] MOL2 format, chain I [auth D] MOL2 format, chain L [auth A] MOL2 format, chain O [auth C]	F [auth B], I [auth D], L [auth A], O [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain F [auth B] Focus chain I [auth D] Focus chain L [auth A] Focus chain O [auth C] Interactions & Density Focus chain F [auth B] Focus chain I [auth D] Focus chain L [auth A] Focus chain O [auth C]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain J [auth D] SDF format, chain M [auth A] SDF format, chain P [auth C] MOL2 format, chain G [auth B] MOL2 format, chain J [auth D] MOL2 format, chain M [auth A] MOL2 format, chain P [auth C]	G [auth B], J [auth D], M [auth A], P [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain G [auth B] Focus chain J [auth D] Focus chain M [auth A] Focus chain P [auth C] Interactions & Density Focus chain G [auth B] Focus chain J [auth D] Focus chain M [auth A] Focus chain P [auth C]