8JX2 | pdb_00008jx2

alpha-Hemolysin(G122S/K147R)-SpyTag/SpyCatcher head to head 14-mer

PDB DOI: https://doi.org/10.2210/pdb8JX2/pdb
EM Map EMD-36688: EMDB EMDataResource

Classification: TOXIN
Organism(s): Staphylococcus aureus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2023-06-30 Released: 2024-07-03
Deposition Author(s): Ishii, Y., Naito, K., Yokoyama, T., Tanaka, Y., Matsuura, T.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8JX2

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

Literature

alpha-Hemolysin(G122S/K147R)-SpyTag/SpyCatcher head to head 14-mer

Ishii, Y., Naito, K., Yokoyama, T., Tanaka, Y., Matsuura, T.

To be published.

Macromolecule Content

Total Structure Weight: 586.65 kDa
Atom Count: 32,872
Modeled Residue Count: 4,102
Deposited Residue Count: 5,215
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
alpha hemolysin fused with spy-catcher	A, B, C, D, E A, B, C, D, E, F, G	421	Staphylococcus aureus	Mutation(s): 2 Gene Names: hly, hla
UniProt
Find proteins for P09616 (Staphylococcus aureus) Explore P09616 Go to UniProtKB: P09616
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P09616
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
alpha hemolysin fused with spy-tag	H, I, J, K, L H, I, J, K, L, M, N	324	Staphylococcus aureus	Mutation(s): 2 Gene Names: hly, hla
UniProt
Find proteins for P09616 (Staphylococcus aureus) Explore P09616 Go to UniProtKB: P09616
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P09616
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-07-03

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	--

Revision History (Full details and data files)

Version 1.0: 2024-07-03
Type: Initial release
Version 1.1: 2025-06-18
Changes: Data collection, Structure summary

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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.