8YQU

African swine fever virus RNA Polymerase-M1249L complex1

PDB DOI: https://doi.org/10.2210/pdb8YQU/pdb
EM Map EMD-39506: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): African swine fever virus
Mutation(s): No

Deposited: 2024-03-20 Released: 2024-11-06
Deposition Author(s): Feng, X.Y.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.85 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

Regulation of early transcription and late transcript processing enzymes packaging for African swine fever virus from endogenous vRNAP-M1249L supercomplex structures

Feng, X.Y.

To be published.

Macromolecule Content

Total Structure Weight: 590.66 kDa
Atom Count: 38,239
Modelled Residue Count: 4,777
Deposited Residue Count: 5,176
Unique protein chains: 9

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit	A	1,450	African swine fever virus	Mutation(s): 0 EC: 2.7.7.6
UniProt
Find proteins for A0A3S7XUW7 (African swine fever virus) Explore A0A3S7XUW7 Go to UniProtKB: A0A3S7XUW7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A3S7XUW7
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
C147L	B [auth E]	147	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A2X0RTW5 (African swine fever virus) Explore A0A2X0RTW5 Go to UniProtKB: A0A2X0RTW5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0RTW5
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta	C [auth B]	1,242	African swine fever virus	Mutation(s): 0 EC: 2.7.7.6
UniProt
Find proteins for A0A2X0RU95 (African swine fever virus) Explore A0A2X0RU95 Go to UniProtKB: A0A2X0RU95
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0RU95
Sequence Annotations Expand
Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase RPB3-11 homolog	D [auth C]	359	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A2X0RUE7 (African swine fever virus) Explore A0A2X0RUE7 Go to UniProtKB: A0A2X0RUE7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0RUE7
Sequence Annotations Expand
Reference Sequence

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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase RPB5 homolog	E [auth D]	205	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A0A1E0C1 (African swine fever virus) Explore A0A0A1E0C1 Go to UniProtKB: A0A0A1E0C1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0A1E0C1
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Reference Sequence

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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase RPB10 homolog	F [auth H]	80	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A0C5BCR6 (African swine fever virus) Explore A0A0C5BCR6 Go to UniProtKB: A0A0C5BCR6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0C5BCR6
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Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
C122R	G	105	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A0A1DYD1 (African swine fever virus) Explore A0A0A1DYD1 Go to UniProtKB: A0A0A1DYD1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0A1DYD1
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Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
D339L	H [auth F]	339	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A2X0RV08 (African swine fever virus) Explore A0A2X0RV08 Go to UniProtKB: A0A2X0RV08
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0RV08
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Reference Sequence

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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
M1249L	I [auth J]	1,249	African swine fever virus	Mutation(s): 0
UniProt
Find proteins for A0A2X0SDX8 (African swine fever virus) Explore A0A2X0SDX8 Go to UniProtKB: A0A2X0SDX8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A2X0SDX8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain M [auth B] SDF format, chain N [auth H] SDF format, chain O [auth G] SDF format, chain P [auth G] SDF format, chain Q [auth J] SDF format, chain R [auth J] SDF format, chain S [auth J] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain M [auth B] MOL2 format, chain N [auth H] MOL2 format, chain O [auth G] MOL2 format, chain P [auth G] MOL2 format, chain Q [auth J] MOL2 format, chain R [auth J] MOL2 format, chain S [auth J] mmCIF format, chain K [auth A] mmCIF format, chain L [auth A] mmCIF format, chain M [auth B] mmCIF format, chain N [auth H] mmCIF format, chain O [auth G] mmCIF format, chain P [auth G] mmCIF format, chain Q [auth J] mmCIF format, chain R [auth J] mmCIF format, chain S [auth J]	K [auth A] L [auth A] M [auth B] N [auth H] O [auth G] K [auth A], L [auth A], M [auth B], N [auth H], O [auth G], P [auth G], Q [auth J], R [auth J], S [auth J]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth B] Focus chain N [auth H] Focus chain O [auth G] Focus chain P [auth G] Focus chain Q [auth J] Focus chain R [auth J] Focus chain S [auth J] Interactions & Density Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth B] Focus chain N [auth H] Focus chain O [auth G] Focus chain P [auth G] Focus chain Q [auth J] Focus chain R [auth J] Focus chain S [auth J]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain J [auth A] MOL2 format, chain J [auth A] mmCIF format, chain J [auth A]	J [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Interactions & Density Focus chain J [auth A]