6M6G

Structure of HSV2 viron capsid portal vertex

PDB DOI: https://doi.org/10.2210/pdb6M6G/pdb
EM Map EMD-30123: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Human alphaherpesvirus 2
Mutation(s): No

Deposited: 2020-03-14 Released: 2021-03-24
Deposition Author(s): Wang, X.X., Wang, N.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 5.39 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

Structures of the portal vertex reveal essential protein-protein interactions for Herpesvirus assembly and maturation.

Wang, N., Chen, W., Zhu, L., Zhu, D., Feng, R., Wang, J., Zhu, B., Zhang, X., Chen, X., Liu, X., Yan, R., Ni, D., Zhou, G.G., Liu, H., Rao, Z., Wang, X.

(2020) Protein Cell 11: 366-373

PubMed: 32285350 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1007/s13238-020-00711-z
Primary Citation of Related Structures:
6M6G, 6M6H, 6M6I

Organizational Affiliation

CAS Key Laboratory of Infection and Immunity, National Laboratory of Macromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China.

Macromolecule Content

Total Structure Weight: 1,965.92 kDa
Atom Count: 78,731
Modelled Residue Count: 10,590
Deposited Residue Count: 18,305
Unique protein chains: 9

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A [auth B] B [auth C] C [auth D] D [auth E] E [auth F] A [auth B], B [auth C], C [auth D], D [auth E], E [auth F], G [auth I]	1,374	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P89442 (Human herpesvirus 2 (strain HG52)) Explore P89442 Go to UniProtKB: P89442
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89442
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Small capsomere-interacting protein	F [auth G] J [auth M] M [auth Q] O [auth T] P [auth U] F [auth G], J [auth M], M [auth Q], O [auth T], P [auth U], Q [auth V]	112	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P89458 (Human herpesvirus 2 (strain HG52)) Explore P89458 Go to UniProtKB: P89458
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89458
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Triplex capsid protein 2	H [auth K], K [auth O]	318	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P89441 (Human herpesvirus 2 (strain HG52)) Explore P89441 Go to UniProtKB: P89441
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89441
Sequence Annotations Expand
Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
coiled coils	I [auth L]	84	Human alphaherpesvirus 2	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Coiled coils	L [auth P]	87	Human alphaherpesvirus 2	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Triplex capsid protein 1	N [auth S]	466	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P22486 (Human herpesvirus 2 (strain G)) Explore P22486 Go to UniProtKB: P22486
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P22486
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Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid vertex component 1	R [auth k]	702	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P89440 (Human herpesvirus 2 (strain HG52)) Explore P89440 Go to UniProtKB: P89440
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89440
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Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid vertex component 2	S [auth l], T [auth m]	585	Human alphaherpesvirus 2	Mutation(s): 0
UniProt
Find proteins for P89448 (Human herpesvirus 2 (strain HG52)) Explore P89448 Go to UniProtKB: P89448
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89448
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Reference Sequence

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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Large tegument protein deneddylase	U [auth n], V [auth o]	3,122	Human alphaherpesvirus 2	Mutation(s): 0 EC: 3.4.19.12 (PDB Primary Data), 3.4.22 (PDB Primary Data)
UniProt
Find proteins for P89459 (Human herpesvirus 2 (strain HG52)) Explore P89459 Go to UniProtKB: P89459
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P89459
Sequence Annotations Expand
Reference Sequence