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Protein

Large delta antigen

Gene
N/A
Organism
Hepatitis delta virus genotype I (isolate Italian) (HDV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Following virus entry into host cell, provides nuclear import of HDV RNPs thanks to its nuclear localization signal. Needs co-infection with hepatitis B virus to provide surface proteins, otherwise there is no packaging or budding. Packages the HDV ribonucleoprotein in hepatitis B virus empty particles. Interacts with both HDV genomic RNA and cytoplasmic tail of HBsAg. May inhibit viral RNA replication (By similarity).By similarity

Miscellaneous

This strain belongs to the genotype I found in North America, Europe, Africa, East and West Asia and the South Pacific.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processViral penetration into host nucleus, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Large delta antigen
Short name:
L-HDAg
Alternative name(s):
p27
OrganismiHepatitis delta virus genotype I (isolate Italian) (HDV)
Taxonomic identifieri10423 [NCBI]
Taxonomic lineageiVirusesDeltavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000008106 Componenti: Genome

Subcellular locationi

  • Virion
  • Host nucleushost nucleolus

  • Note: isoprenylated in the cytoplasm, and translocates in the nucleus possibly after phosphorylation. Translocates after to nuclear speckle, then to the ER membrane where interaction with Hepatitis B virus antigene takes place (By similarity).By similarity

GO - Cellular componenti

Keywords - Cellular componenti

Host nucleus, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000381321 – 211Large delta antigenAdd BLAST211
PropeptideiPRO_0000396788212 – 214Removed in mature formBy similarity3

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2Phosphoserine; by hostBy similarity1
Modified residuei13Omega-N-methylated arginine; by hostBy similarity1
Modified residuei72N6-acetyllysine; by hostBy similarity1
Modified residuei123Phosphoserine; by hostBy similarity1
Modified residuei177Phosphoserine; by hostBy similarity1
Modified residuei211Cysteine methyl ester; by hostBy similarity1
Lipidationi211S-farnesyl cysteine; by hostBy similarity1

Post-translational modificationi

Prenylated by host farnesyl-transferase in the cytoplasm prior to nucleus translocation.By similarity
Phosphorylated at serines by host CK2 and other kinases. phosphorylation does not seem to be important for its function (By similarity).By similarity

Keywords - PTMi

Acetylation, Lipoprotein, Methylation, Phosphoprotein, Prenylation

Interactioni

Subunit structurei

Homodimer. Homooctamer. Interacts with HBV HBsAg. May interact with clathrin to induce virion budding (By similarity).By similarity

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5M5UX-ray2.15E/F/G/H196-204[»]
ProteinModelPortaliP0C6L6.
SMRiP0C6L6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni12 – 60DimerizationSequence analysisAdd BLAST49
Regioni97 – 107RNA-bindingSequence analysisAdd BLAST11
Regioni136 – 146RNA-bindingSequence analysisAdd BLAST11

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi66 – 75Nuclear localization signalBy similarity10

Sequence similaritiesi

Belongs to the hepatitis delta antigen family.Curated

Phylogenomic databases

OrthoDBiVOG090000ZI.

Family and domain databases

Gene3Di4.10.220.40. 1 hit.
InterProiView protein in InterPro
IPR027403. Delta_antigen_N.
IPR002506. HDV_ag.
PfamiView protein in Pfam
PF01517. HDV_ag. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P0C6L6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRSESRKNR GGREEILEQW VAGRKKLEEL ERDLRKTKKK LKKIEDENPW
60 70 80 90 100
LGNIKGILGK KDKDGEGAPP AKRARTDQME VDSGPRKRPL RGGFTDKERQ
110 120 130 140 150
DHRRRKALEN KKKQLSAGGK NLSKEEEEEL RRLTEEDERR ERRVAGPPVG
160 170 180 190 200
GVIPLEGGSR GAPGGGFVPS LQGVPESPFS RTGEGLDIRG NRGFPWDILF
210
PADPPFSPQS CRPQ
Length:214
Mass (Da):24,078
Last modified:April 14, 2009 - v1
Checksum:i83221B6EED0A2688
GO

RNA editingi

Edited at position 196.By similarity
Partially edited. RNA editing at this position occurs on the antigenomic strand and consists of a conversion of A to G catalyzed by the cellular enzyme ADAR1. The unedited RNA version gives rise to the small delta antigen (AC P06934), which ends with a nonsense codon at position 196. In the edited version, this amber codon is modified to a tryptophan codon and gives rise to the large delta antigen protein. S-HDAg suppresses editing of non-replicating antigenomic RNA, thereby regulating the extent of editing (By similarity).By similarity

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04451 Genomic RNA. Translation: CAA28050.1. Sequence problems.
PIRiA26176. SAVLDV.

Keywords - Coding sequence diversityi

RNA editing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04451 Genomic RNA. Translation: CAA28050.1. Sequence problems.
PIRiA26176. SAVLDV.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5M5UX-ray2.15E/F/G/H196-204[»]
ProteinModelPortaliP0C6L6.
SMRiP0C6L6.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

OrthoDBiVOG090000ZI.

Family and domain databases

Gene3Di4.10.220.40. 1 hit.
InterProiView protein in InterPro
IPR027403. Delta_antigen_N.
IPR002506. HDV_ag.
PfamiView protein in Pfam
PF01517. HDV_ag. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiLHDAG_HDVIT
AccessioniPrimary (citable) accession number: P0C6L6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: April 14, 2009
Last modified: May 10, 2017
This is version 33 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, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.