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Protein

Capsid scaffolding protein

Gene

UL80

Organism
Human cytomegalovirus (strain Merlin) (HHV-5) (Human herpesvirus 5)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

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 sitei63Charge relay systemUniRule annotation1
Active sitei132Charge relay systemUniRule annotation1
Active sitei157Charge relay systemUniRule annotation1

GO - Molecular functioni

GO - Biological processi

  • nuclear capsid assembly Source: UniProtKB

Keywordsi

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

Names & Taxonomyi

Protein namesi
Recommended name:
Capsid scaffolding proteinUniRule annotation
Alternative name(s):
Capsid protein P40
Protease precursorUniRule annotation
Short name:
pPRUniRule annotation
Cleaved into the following 2 chains:
AssemblinUniRule annotation (EC:3.4.21.97UniRule annotation)
Alternative name(s):
ProteaseUniRule annotation
Assembly proteinUniRule annotation
Alternative name(s):
Capsid assembly proteinUniRule annotation
Gene namesi
Name:UL80
Synonyms:APNG
OrganismiHuman cytomegalovirus (strain Merlin) (HHV-5) (Human herpesvirus 5)
Taxonomic identifieri295027 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageHerpesviralesHerpesviridaeBetaherpesvirinaeCytomegalovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000000938 Componenti: Genome

Subcellular locationi

Capsid scaffolding protein :
  • Host cytoplasm UniRule annotation
Assemblin :
  • Host nucleus UniRule annotation
Assembly protein :
  • Host nucleus UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004182701 – 708Capsid scaffolding proteinAdd BLAST708
ChainiPRO_00004182711 – 256AssemblinUniRule annotationAdd BLAST256
ChainiPRO_0000418272257 – 708Assembly proteinUniRule annotationAdd BLAST452

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
Sitei256 – 257Cleavage; by assemblin; Release siteUniRule annotation2
Sitei643 – 644Cleavage; by assemblin; Maturation site2
Sitei684 – 685Cleavage; by assemblin; Tail site2

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiQ6SW62

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

Structurei

3D structure databases

ProteinModelPortaliQ6SW62
SMRiQ6SW62
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni333 – 352Interaction with pAPUniRule annotationAdd BLAST20
Regioni688 – 708Interaction with major capsid proteinUniRule annotationAdd BLAST21

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi510 – 515Nuclear localization signal 1By similarity6
Motifi537 – 543Nuclear localization signal 2By similarity7

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi459 – 466Poly-Pro8
Compositional biasi519 – 523Poly-Ser5
Compositional biasi560 – 564Poly-Gln5
Compositional biasi603 – 606Poly-Thr4
Compositional biasi675 – 684Poly-Ala10

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

Keywords - Domaini

Coiled coil

Phylogenomic databases

KOiK21078
OrthoDBiVOG0900004L

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 (4)i

Sequence statusi: Complete.

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

This entry describes 4 isoformsi produced by alternative promoter usage. AlignAdd to basket

Isoform Capsid scaffolding protein (identifier: Q6SW62-1) [UniParc]FASTAAdd to basket
Also known as: pPR, UL80a

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
MTMDEQQSQA VAPVYVGGFL ARYDQSPDEA ELLLPRDVVE HWLHAQGQGQ
60 70 80 90 100
PSLSVALPLN INHDDTAVVG HVAAMQSVRD GLFCLGCVTS PRFLEIVRRA
110 120 130 140 150
SEKSELVSRG PVSPLQPDKV VEFLSGSYAG LSLSSRRCDD VEAATSLSGS
160 170 180 190 200
ETTPFKHVAL CSVGRRRGTL AVYGRDPEWV TQRFPDLTAA DRDGLRAQWQ
210 220 230 240 250
RCGSTAVDAS GDPFRSDSYG LLGNSVDALY IRERLPKLRY DKQLVGVTER
260 270 280 290 300
ESYVKASVSP EAACVIKAAS AERSGDSRSQ AATPAAGARV PSSSPSPPVE
310 320 330 340 350
PPSPVQPPAL PASPSVLPAE SPPSLSPSEP AEAASMSHPL SAAVPAATAP
360 370 380 390 400
PGATVAGASP AVSSLAWPHD GVYLPKDAFF SLLGASRSAA PVMYPGAVAA
410 420 430 440 450
PPSASPAPLP LPSYPASYGA PVVGYDQLAA RHFADYVDPH YPGWGRRYEP
460 470 480 490 500
APSLHPSYPV PPPPSPAYYR RRDSPGGMDE PPSGWERYDG GHRGQSQKQH
510 520 530 540 550
RHGGSGGHNK RRKETAAASS SSSDEDLSFP GEAEHGRARK RLKSHVNSDG
560 570 580 590 600
GSGGHAGSNQ QQQQRYDELR DAIHELKRDL FAARQSSTLL SAALPSAASS
610 620 630 640 650
SPTTTTVCTP TSELTSGGGE TPTALLSGGA KVAERAQAGV VNASCRLATA
660 670 680 690 700
SGSEAATAGP STAGSSSCPA SVVLAAAAAQ AAAASQSPPK DMVDLNRRIF

VAALNKLE
Length:708
Mass (Da):73,838
Last modified:July 5, 2004 - v1
Checksum:i28106DF482DB0521
GO
Isoform pAP (identifier: Q6SW62-2) [UniParc]FASTAAdd to basket
Also known as: Assembly protein, UL80.5

The sequence of this isoform differs from the canonical sequence as follows:
     1-335: Missing.

Show »
Length:373
Mass (Da):38,254
Checksum:i22DC5CD5908F8742
GO
Isoform UL80.4 protein (identifier: Q6SW62-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-392: Missing.

Show »
Length:316
Mass (Da):32,730
Checksum:i622F82D938391A35
GO
Isoform UL80.3 protein (identifier: Q6SW62-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-477: Missing.

Show »
Length:231
Mass (Da):23,631
Checksum:i05D6709199A589F5
GO

Sequence cautioni

The sequence AAR31633 differs from that shown. Reason: Erroneous initiation.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0440171 – 477Missing in isoform UL80.3 protein. CuratedAdd BLAST477
Alternative sequenceiVSP_0440181 – 392Missing in isoform UL80.4 protein. CuratedAdd BLAST392
Alternative sequenceiVSP_0440191 – 335Missing in isoform pAP. CuratedAdd BLAST335

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY446894 Genomic DNA Translation: AAR31632.1
AY446894 Genomic DNA Translation: AAR31633.1 Different initiation.
RefSeqiYP_081528.1, NC_006273.2
YP_081529.1, NC_006273.2

Genome annotation databases

GeneIDi3077443
3077485
KEGGivg:3077443
vg:3077485

Keywords - Coding sequence diversityi

Alternative promoter usage

Similar proteinsi

Entry informationi

Entry nameiSCAF_HCMVM
AccessioniPrimary (citable) accession number: Q6SW62
Secondary accession number(s): D2K3N8, D2K3N9, Q6SW61
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 11, 2012
Last sequence update: July 5, 2004
Last modified: May 23, 2018
This is version 69 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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