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Protein

Capsid scaffolding protein

Gene
N/A
Organism
Suid herpesvirus 1 (strain Kaplan) (SuHV-1) (Pseudorabies virus (strain Kaplan))
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Capsid scaffolding protein: Acts as a scaffold protein by binding major capsid protein in the cytoplasm, inducing the nuclear localization of both proteins. Multimerizes in the nucleus such as major capsid protein forms the icosahedral T=16 capsid. Autocatalytic cleavage releases the assembly protein, and subsequently abolishes interaction with major capsid protein. Cleavages products are evicted from the capsid before or during DNA packaging.UniRule annotation
Assemblin: Protease that plays an essential role in virion assembly within the nucleus. Catalyzes the cleavage of the assembly protein after formation of the spherical procapsid. By that cleavage, the capsid matures and gains its icosahedral shape. The cleavage sites seem to include -Ala-Ser-, -Ala-Ala-, as well as Ala-Thr bonds. Assemblin and cleavages products are evicted from the capsid before or during DNA packaging.UniRule annotation
Assembly protein: Plays a major role in capsid assembly. Acts as a scaffold protein by binding major capsid protein. Multimerizes in the nucleus such as major capsid protein forms the icosahedral T=16 capsid. Cleaved by assemblin after capsid completion. The cleavages products are evicted from the capsid before or during DNA packaging.UniRule annotation

Catalytic activityi

Cleaves -Ala-|-Ser- and -Ala-|-Ala- bonds in the scaffold protein.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei43Charge relay systemUniRule annotation1
Active sitei109Charge relay systemUniRule annotation1
Active sitei128Charge relay systemUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Protease, Serine protease
Biological processViral capsid assembly, Viral release from host cell

Protein family/group databases

MEROPSiS21.001

Names & Taxonomyi

Protein namesi
Recommended name:
Capsid scaffolding proteinUniRule annotation
Alternative name(s):
Capsid protein P40
Protease precursorUniRule annotation
Short name:
pPRUniRule annotation
Virion structural protein UL26
Cleaved into the following 2 chains:
AssemblinUniRule annotation (EC:3.4.21.97UniRule annotation)
Alternative name(s):
Capsid protein VP24
ProteaseUniRule annotation
Assembly proteinUniRule annotation
Alternative name(s):
Capsid assembly proteinUniRule annotation
Capsid protein VP22A
OrganismiSuid herpesvirus 1 (strain Kaplan) (SuHV-1) (Pseudorabies virus (strain Kaplan))
Taxonomic identifieri33703 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageHerpesviralesHerpesviridaeAlphaherpesvirinaeVaricellovirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Capsid scaffolding protein :
Assemblin :
Assembly protein :

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004345311 – 524Capsid scaffolding proteinAdd BLAST524
ChainiPRO_00004345321 – 225AssemblinUniRule annotationAdd BLAST225
ChainiPRO_0000434533226 – 524Assembly proteinUniRule annotationAdd BLAST299

Post-translational modificationi

Capsid scaffolding protein is cleaved by assemblin after formation of the spherical procapsid. As a result, the capsid obtains its mature, icosahedral shape. Cleavages occur at two or more sites: release and tail site.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei225 – 226Cleavage; by assemblin; Release siteUniRule annotation2
Sitei502 – 503Cleavage; by assemblin; Tail siteBy similarity2

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Capsid scaffolding protein homomultimerizes and interacts with major capsid protein. Assemblin exists in a monomer-dimer equilibrium with the dimer being the active species. Assembly protein homomultimerizes and interacts with major capsid protein.UniRule annotation

GO - Molecular functioni

Structurei

Secondary structure

1524
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ83417
SMRiQ83417
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni256 – 275Interaction with pAPUniRule annotationAdd BLAST20
Regioni504 – 524Interaction with major capsid proteinUniRule annotationAdd BLAST21

Domaini

Region of interaction between pPR and pAP is called Amino conserved domain (ACD). The region of interaction with major capsid protein is called carboxyl conserved domain (CCD).UniRule annotation

Sequence similaritiesi

Belongs to the herpesviridae capsid scaffolding protein family.UniRule annotation

Family and domain databases

Gene3Di3.20.16.10, 1 hit
HAMAPiMF_04008 HSV_SCAF, 1 hit
InterProiView protein in InterPro
IPR035443 Herpes_virus_sf
IPR001847 Peptidase_S21
PfamiView protein in Pfam
PF00716 Peptidase_S21, 1 hit
PRINTSiPR00236 HSVCAPSIDP40

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative promoter usage. AlignAdd to basket
Isoform Capsid scaffolding protein (identifier: Q83417-1) [UniParc]FASTAAdd to basket
Also known as: pPR, UL26

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MGPVYVSGYL ALYDRDGGEL ALTREIVAAA LPPAGPLPIN IDHRPRCDIG
60 70 80 90 100
AVLAVVDDDR GPFFLGVVNC PQLGAVLARA VGPDFFGDMR LSDEERLLYL
110 120 130 140 150
LSNYLPSASL SSRRLAPGEA PDETLFAHVA LCVIGRRVGT IVVYDASPEA
160 170 180 190 200
AVAPFRQLSA RARSELLARA AESPDRERVW HMSEEALTRA LLSTAVNNML
210 220 230 240 250
LRDRWELVAA RRREAGVRGH TYLQATMWAG LLPKSGASPA PGPSAAMAAP
260 270 280 290 300
PSAAPGDYIF VPAAQYNQLV VNQRPAPSLE SQLGAIVSAA MDRRHRRSPS
310 320 330 340 350
PEPRPPARKR RYDDYAQDNA YYPGEAPPPA SDLAAVVSSL QREISHLRAQ
360 370 380 390 400
QLRYPTPYYA PAAPPQLLPP GAVVGHPHPH HAAGALYPPM YAPQPGLHAP
410 420 430 440 450
PPSPVAHAVP ALPGLPGLQG LAAPVAHVPA QVVPQQPVVV QAQPVAVPAA
460 470 480 490 500
AAAAPAPAPA AAAAAAAPVQ AAAPAAPASA PQPPVQASVS APADVSAGTI
510 520
DASSAAVACQ RGADIFVSQM MSQR
Length:524
Mass (Da):54,645
Last modified:November 1, 1996 - v1
Checksum:i6C8210F747315BB0
GO
Isoform pAP (identifier: Q83417-2) [UniParc]FASTAAdd to basket
Also known as: Assembly protein, UL26.5 protein

The sequence of this isoform differs from the canonical sequence as follows:
     1-246: Missing.

Show »
Length:278
Mass (Da):28,198
Checksum:iE0AD4E74C395273F
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0579421 – 246Missing in isoform pAP. Add BLAST246

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
JF797218 Genomic DNA Translation: AEM64057.1
JQ809328 Genomic DNA Translation: AFI70810.1
KJ717942 Genomic DNA Translation: AID18746.1
X95710 Genomic DNA Translation: CAA65015.1
RefSeqiYP_068348.1, NC_006151.1

Genome annotation databases

GeneIDi2952508
KEGGivg:2952508

Keywords - Coding sequence diversityi

Alternative promoter usage

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
JF797218 Genomic DNA Translation: AEM64057.1
JQ809328 Genomic DNA Translation: AFI70810.1
KJ717942 Genomic DNA Translation: AID18746.1
X95710 Genomic DNA Translation: CAA65015.1
RefSeqiYP_068348.1, NC_006151.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4CX8X-ray2.53A/B1-224[»]
4V07X-ray2.10A/B1-224[»]
4V08X-ray2.03A/B1-224[»]
4V0TX-ray2.05A/B1-224[»]
ProteinModelPortaliQ83417
SMRiQ83417
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiS21.001

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi2952508
KEGGivg:2952508

Family and domain databases

Gene3Di3.20.16.10, 1 hit
HAMAPiMF_04008 HSV_SCAF, 1 hit
InterProiView protein in InterPro
IPR035443 Herpes_virus_sf
IPR001847 Peptidase_S21
PfamiView protein in Pfam
PF00716 Peptidase_S21, 1 hit
PRINTSiPR00236 HSVCAPSIDP40
ProtoNetiSearch...

Entry informationi

Entry nameiSCAF_SUHVK
AccessioniPrimary (citable) accession number: Q83417
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 14, 2015
Last sequence update: November 1, 1996
Last modified: October 10, 2018
This is version 78 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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