P36310 (CAPSD_PAVL3) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names	Recommended name: Capsid protein VP1 Alternative name(s): Coat protein VP1
Organism	Parvovirus LuIII [Complete proteome]
Taxonomic identifier	35339 [NCBI]
Taxonomic lineage	Viruses › ssDNA viruses › Parvoviridae › Parvovirinae › Parvovirus
Virus host	Rodentia [TaxID: 9989]

Protein attributes

Sequence length	729 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Capsid protein self-assembles to form an icosahedral capsid with a T=1 symmetry, about 22 nm in diameter, and consisting of 60 copies of two size variants of the capsid proteins, VP1 and VP2, which differ by the presence of an N-terminal extension in the minor protein VP1. The capsid encapsulates the genomic ssDNA. Capsid proteins are responsible for the attachment to host cell receptors. This attachment induces virion internalization predominantly through clathrin-dependent endocytosis. Binding to the host receptors also induces capsid rearrangements leading to surface exposure of VP1 N-terminus, specifically its phospholipase A2-like region and putative nuclear localization signal(s). VP1 N-terminus might serve as a lipolytic enzyme to breach the endosomal membrane during entry into host cell and might contribute to virus transport to the nucleus By similarity.
Subcellular location	Virion By similarity. Host nucleus Potential.
Domain	The N-terminus of VP1 is sequestered within the mature capsid. It contains a phospholipase A2-like region and putative nuclear localization signals.
Sequence similarities	Belongs to the parvoviridae capsid protein family.

Ontologies

Keywords
Biological process	Clathrin-mediated endocytosis of virus by host Cytoplasmic active transport of viral material Host-virus interaction Initiation of viral infection Microtubule-dependent active transport of viral material Viral attachment to host cell Viral penetration into host cytoplasm Viral penetration into host nucleus Viral penetration via permeabilization of host organellar membrane Virus endocytosis by host
Cellular component	Host nucleus Virion
Coding sequence diversity	Alternative splicing
Ligand	Magnesium Metal-binding
Molecular function	Capsid protein T=1 icosahedral capsid protein
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	interspecies interaction between organisms Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	host cell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell viral capsid Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW structural molecule activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform VP1 (identifier: P36310-1)

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.

Note: Minor splicing isoform.

Isoform VP2 (identifier: P36310-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-142: Missing.

Note: Major splicing isoform produced by deletion of the initiating AUG for VP1 and downstream translation of VP2.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 729	729	Capsid protein VP1		PRO_0000222460
Regions
	Region	19 – 64	46	Phospholipase A2-like By similarity
	Motif	4 – 13	10	Nuclear localization signal Potential
	Compositional bias	168 – 183	16	Gly-rich
Sites
	Metal binding	325	1	Magnesium 1 By similarity
Natural variations
	Alternative sequence	1 – 142	142	Missing in isoform VP2.		VSP_041141

Sequences

	Sequence		Length	Mass (Da)
	Isoform VP1 [UniParc]. Last modified May 31, 2011. Version 2. Checksum: 56A59A50E5BCDE43	FASTA	729	81,125
	10 20 30 40 50 60 MAPPAKRAKR GWVPPGYKYL GPGNSLNQGE PTNPSDAAAK EHDEAYDQYI KSGKNPYLYF 70 80 90 100 110 120 SPADQRFIDQ TKDAKDWGGK VGHYFFRTKR AFAPKLSTDS EPGTSGVSTA GKRTKPPAHI 130 140 150 160 170 180 FINQARAKKK RTSLAAQQRT QTMSDGTDQS DSGNAVQSAA RVERAADGPG GSGGGGSGGG 190 200 210 220 230 240 GVGVSTGSYD NQTHYKFLGD GWVEITAYST RMVHLNMPKS ENYCRVRVHN TNDTGTASHM 250 260 270 280 290 300 AMDDAHEQIW TPWSLVDANA WGVWFQPSDW QYISNNMIHI NLHSLDQELF NVVIKTVTEQ 310 320 330 340 350 360 NTGAEAIKVY NNDLTAAMMV ALDSNNILPY TPAIDNQETL GFYPWKPTIP SPYRYYFSCD 370 380 390 400 410 420 RNLSVTYKDE AGTITDTMGL ASGLNSQFFT IENTQRINLL RTGDEYATGT YYFDTEPIRL 430 440 450 460 470 480 THTWQTNRHL GQPPQITELP SSDTANATLT ARGYRSGLTQ IQGRNDVTEA TRVRPAQVGF 490 500 510 520 530 540 CQPHDNFETS RAGPFKVPVV PADITQGLDH DANGSLRYTY DKQHGQSWAS QNNKDRYTWD 550 560 570 580 590 600 AVNYDSGRWT NNCFIQSVPF TSEPNANQIL TNRDNLAGKT DIHFTNAFNS YGPLTAFPHP 610 620 630 640 650 660 APIYPQGQIW DKELDLEHKP RLHTQAPFVC KNNAPGQLLV RLAPNLTDQY DPNSSNLSRI 670 680 690 700 710 720 VTYGTFFWKG KLTLKAKMRP NATWNPVFQI SATNQGTNDY MSIERWLPTA TGNITNVPLL SRPVARNTY
	Isoform VP2 [UniParc]. Checksum: 523E6B9CBF2EBB74	FASTA	587	65,429
	10 20 30 40 50 60 MSDGTDQSDS GNAVQSAARV ERAADGPGGS GGGGSGGGGV GVSTGSYDNQ THYKFLGDGW 70 80 90 100 110 120 VEITAYSTRM VHLNMPKSEN YCRVRVHNTN DTGTASHMAM DDAHEQIWTP WSLVDANAWG 130 140 150 160 170 180 VWFQPSDWQY ISNNMIHINL HSLDQELFNV VIKTVTEQNT GAEAIKVYNN DLTAAMMVAL 190 200 210 220 230 240 DSNNILPYTP AIDNQETLGF YPWKPTIPSP YRYYFSCDRN LSVTYKDEAG TITDTMGLAS 250 260 270 280 290 300 GLNSQFFTIE NTQRINLLRT GDEYATGTYY FDTEPIRLTH TWQTNRHLGQ PPQITELPSS 310 320 330 340 350 360 DTANATLTAR GYRSGLTQIQ GRNDVTEATR VRPAQVGFCQ PHDNFETSRA GPFKVPVVPA 370 380 390 400 410 420 DITQGLDHDA NGSLRYTYDK QHGQSWASQN NKDRYTWDAV NYDSGRWTNN CFIQSVPFTS 430 440 450 460 470 480 EPNANQILTN RDNLAGKTDI HFTNAFNSYG PLTAFPHPAP IYPQGQIWDK ELDLEHKPRL 490 500 510 520 530 540 HTQAPFVCKN NAPGQLLVRL APNLTDQYDP NSSNLSRIVT YGTFFWKGKL TLKAKMRPNA 550 560 570 580 TWNPVFQISA TNQGTNDYMS IERWLPTATG NITNVPLLSR PVARNTY

References

[1]	"The complete nucleotide sequence of parvovirus LuIII and localization of a unique sequence possibly responsible for its encapsidation pattern." Diffoot N., Chen K.C., Bates R.C., Lederma M. Virology 192:339-345(1993) [PubMed: 8517025] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M81888 Genomic DNA. No translation available.
PIR	B44276.
RefSeq	NP_821155.1. NC_004713.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1497264.
Family and domain databases
InterPro	IPR016184. Capsid/spike_ssDNA_virus. IPR001403. Parvovirus_coat. IPR013607. Parvovirus_coat_VP1_N. [Graphical view]
Gene3D	G3DSA:2.170.30.10. Parvo_coat. 1 hit.
Pfam	PF00740. Parvo_coat. 1 hit. PF08398. Parvo_coat_N. 1 hit. [Graphical view]
SUPFAM	SSF88645. Capsid/spike_ssDNA_virus. 1 hit.
ProtoNet	Search...

Entry information

Entry name

CAPSD_PAVL3

Accession

Primary (citable) accession number: P36310

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 1994
Last sequence update:	May 31, 2011
Last modified:	September 21, 2011
This is version 50 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program