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Protein

Small delta antigen

Gene
N/A
Organism
Hepatitis delta virus genotype I (isolate D380) (HDV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Promotes both transcription and replication of genomic RNA. Following virus entry into host cell, provides nuclear import of HDV RNPs thanks to its nuclear localization signal. May interact with host RNA polymerase II thereby changing its template requirement from DNA to RNA. RNA pol II complex would then acts as an RNA-directed RNA polymerase, and transcribe and replicate HDV genome (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 processHost-virus interaction, Viral penetration into host nucleus, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Small delta antigen
Short name:
S-HDAg
Alternative name(s):
p24
OrganismiHepatitis delta virus genotype I (isolate D380) (HDV)
Taxonomic identifieri31762 [NCBI]
Taxonomic lineageiVirusesDeltavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000006675 Componenti: Genome

Subcellular locationi

  • Virion 1 Publication
  • Host nucleus 1 Publication

GO - Cellular componenti

Keywords - Cellular componenti

Host nucleus, Virion

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi2S → A: Reduces viral replication. 1 Publication1
Mutagenesisi72K → R: Complete loss of nuclear localization. 1 Publication1
Mutagenesisi123S → A: No effect on viral replication. 1 Publication1
Mutagenesisi177S → A: Reduces viral replication. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000381311 – 195Small delta antigenAdd BLAST195

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2Phosphoserine; by host CK21 Publication1
Modified residuei13Omega-N-methylated arginine; by host PRMT11 Publication1
Modified residuei72N6-acetyllysine; by host1 Publication1
Modified residuei123Phosphoserine; by host1 Publication1
Modified residuei177Phosphoserine; by host MAPK1 and MAPK32 Publications1
Modified residuei182Phosphothreonine; by host1 Publication1

Post-translational modificationi

Phosphorylated at serines and threonines by host MAPK1/3, PKR, and CK2.3 Publications
Acetylation modulates nuclear localization. Neo-synthesized genomic RNA migrates from the nucleus to the cytoplasm, where they interact with S-HDAg, which once acetylated redirect both partners to the nucleus.1 Publication
Methylation plays a role in viral genome replication.1 Publication

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

PTM databases

iPTMnetiP0C6L3.

Interactioni

Subunit structurei

Homodimer (By similarity). Homooctamer (By similarity). Interacts with host RNA polymerase II complex, and with host NPM1.By similarity1 Publication

Structurei

3D structure databases

DisProtiDP00965.
SMRiP0C6L3.
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

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.

P0C6L3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRPEGRKNR GGREEVLEQW VSGRKKLEEL ERDLRKVKKK IKKLEDEHPW
60 70 80 90 100
LGNIKGILGK KDKDGEGAPP AKRARTDQME VDSGPRKRPS RGGFTDKERQ
110 120 130 140 150
DHRRRKALEN KRKQLSAGGK NLSKEEEEEL RRLTEEDERR ERRIAGPQVG
160 170 180 190
GVNPLEGGTR GAPGGGFVPS MQGVPESPFT RTGEGLDIRG SQGFP
Length:195
Mass (Da):21,937
Last modified:February 10, 2009 - v1
Checksum:i8F09A9C62E9D2721
GO

RNA editingi

Edited at position 196.
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, 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 (AC P29996). S-HDAg suppresses editing of non-replicating antigenomic RNA, thereby regulating the extent of editing.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D01075 Genomic RNA. Translation: BAA00874.1.
PIRiA35219. SAVLH1.
RefSeqiNP_077804.1. NC_001653.2.

Genome annotation databases

GeneIDi920835.
KEGGivg:920835.

Keywords - Coding sequence diversityi

RNA editing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D01075 Genomic RNA. Translation: BAA00874.1.
PIRiA35219. SAVLH1.
RefSeqiNP_077804.1. NC_001653.2.

3D structure databases

DisProtiDP00965.
SMRiP0C6L3.
ModBaseiSearch...
MobiDBiSearch...

PTM databases

iPTMnetiP0C6L3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi920835.
KEGGivg:920835.

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 nameiSHDAG_HDVD3
AccessioniPrimary (citable) accession number: P0C6L3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 10, 2009
Last sequence update: February 10, 2009
Last modified: June 7, 2017
This is version 38 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

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.