8XJ7

The Cryo-EM structure of MPXV E5 in complex with DNA

PDB DOI: https://doi.org/10.2210/pdb8XJ7/pdb
EM Map EMD-38395: EMDB EMDataResource
NAKB: 8XJ7

Classification: REPLICATION
Organism(s): Monkeypox virus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-12-20 Released: 2024-05-01
Deposition Author(s): Zhang, W., Liu, Y., Gao, H., Gan, J.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.74 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Structural and functional insights into the helicase protein E5 of Mpox virus.

Gan, J., Zhang, W.

(2024) Cell Discov

Macromolecule Content

Total Structure Weight: 567.41 kDa
Atom Count: 19,595
Modelled Residue Count: 2,426
Deposited Residue Count: 4,780
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Monkeypox virus E5	A, B, C, D, E A, B, C, D, E, F	785	Monkeypox virus	Mutation(s): 0 Gene Names: E5R
UniProt
Find proteins for Q5IXS3 (Monkeypox virus) Explore Q5IXS3 Go to UniProtKB: Q5IXS3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q5IXS3
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (70-MER)	G [auth X]	70	Monkeypox virus
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ANP (Subject of Investigation/LOI) Query on ANP Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain J [auth B] SDF format, chain L [auth C] SDF format, chain N [auth D] SDF format, chain O [auth E] SDF format, chain P [auth F] MOL2 format, chain H [auth A] MOL2 format, chain J [auth B] MOL2 format, chain L [auth C] MOL2 format, chain N [auth D] MOL2 format, chain O [auth E] MOL2 format, chain P [auth F]	H [auth A] J [auth B] L [auth C] N [auth D] O [auth E] H [auth A], J [auth B], L [auth C], N [auth D], O [auth E], P [auth F]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C₁₀ H₁₇ N₆ O₁₂ P₃ PVKSNHVPLWYQGJ-KQYNXXCUSA-N		Interactions Focus chain H [auth A] Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth F] Interactions & Density Focus chain H [auth A] Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain O [auth E] Focus chain P [auth F]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth B] SDF format, chain M [auth C] MOL2 format, chain I [auth A] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C]	I [auth A], K [auth B], M [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C]