8JKH | pdb_00008jkh

CryoEM structure of sNS1 complexed with Fab 4B8

PDB DOI: https://doi.org/10.2210/pdb8JKH/pdb
EM Map EMD-36372: EMDB EMDataResource

Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Organism(s): Zika virus, Homo sapiens
Expression System: Trichoplusia ni, Homo sapiens
Mutation(s): No

Deposited: 2023-06-01 Released: 2024-12-04
Deposition Author(s): Chen, Q., Pan, Q.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8JKH

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

Literature

Structural insights into the distinct protective mechanisms of human antibodies targeting ZIKV NS1

Pan, Q., Xing, X., Yu, J., Chen, Q., Jiao, H., Zhang, W., Wen, Y., Gao, M., Zhao, W., Yu, L., Hu, H.

(2024) Hlife 2: 527-541

DOI: https://doi.org/10.1016/j.hlife.2024.05.003

Macromolecule Content

Total Structure Weight: 259.54 kDa
Atom Count: 17,603
Modeled Residue Count: 2,270
Deposited Residue Count: 2,328
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS1	A, B [auth a], G [auth B], H [auth b]	358	Zika virus	Mutation(s): 0
UniProt
Find proteins for A0A1B3ZSF4 (Zika virus) Explore A0A1B3ZSF4 Go to UniProtKB: A0A1B3ZSF4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1B3ZSF4
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
the heavy chain of antibody 4B8	C [auth h], E [auth H], I [auth m], K [auth M]	117	Homo sapiens	Mutation(s): 0

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
the light chain of antibody 4B8	D [auth l], F [auth L], J [auth n], L [auth N]	107	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.18.2_3874:

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-12-04

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32100963

Revision History (Full details and data files)

Version 1.0: 2024-12-04
Type: Initial release

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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.