P33484 (CAPSD_PAVP9) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names	Recommended name: Capsid protein VP1 Alternative name(s): Coat protein VP1
Organism	Porcine parvovirus (strain 90HS) (PPV)
Taxonomic identifier	33725 [NCBI]
Taxonomic lineage	Viruses › ssDNA viruses › Parvoviridae › Parvovirinae › Parvovirus
Virus host	Sus scrofa (Pig) [TaxID: 9823]

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.
Miscellaneous	The capsids of autonomous parvoviruses expose a proportion of VP2 N-terminus and part of that sequence can be cleaved of to form VP3.
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
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: P33484-1)

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: P33484-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-150: 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_0000039433
Regions
	Region	18 – 63	46	Phospholipase A2-like By similarity
	Motif	4 – 12	9	Nuclear localization signal Potential
	Compositional bias	175 – 190	16	Gly-rich
Sites
	Metal binding	330	1	Magnesium 1 By similarity
Natural variations
	Alternative sequence	1 – 150	150	Missing in isoform VP2.		VSP_041142

Sequences

	Sequence		Length	Mass (Da)
	Isoform VP1 [UniParc]. Last modified February 1, 1994. Version 1. Checksum: 92538BFF9A0C78E6	FASTA	729	80,938
	10 20 30 40 50 60 MAPPAKRARG LTLPGYKYLG PGNSLDQGEP TNPSDAAAKE HDEAYDKYIK SGKNPYFYFS 70 80 90 100 110 120 AADEKFIKET EHAKDYGGKI GHYFFRAKRA FRPKLSETDS PTTSQQPEVR RSPRKHPGSK 130 140 150 160 170 180 PPGKRPAPRH IFINLAKKKA KGTSNTNSNS MSENVEQHNP INAGTELSAT GNESGGGGGG 190 200 210 220 230 240 GGGRGAGGVG VSTGSFNNQT EFQYLGEGLV RITAHASRLI HLNMPEHETY KRIHVLNSES 250 260 270 280 290 300 GVAGQMVQDD AHTQMVTPWS LIDANAWGVW FNPADWQLIS NNMTEINLVS FEQEIFNVVL 310 320 330 340 350 360 KTITESATSP PTKIYNNDLT ASLMVALDTN NTLPYTPAAP RSETLGFYPW LPTKPTQYRY 370 380 390 400 410 420 YLSCTRNLNP PTYTGQSQQI TDSIQTGLHS DIMFYTIENA VPIHLLRTGD EFSTGIYHFD 430 440 450 460 470 480 TKPLKLTHSW QTNRSLGLPP KLLTEPTTEG DQHPGTLPAA NTRKGYHQTM NNSYTEATAI 490 500 510 520 530 540 RPAQVGYNTP YMNFEYSNGG PFLTPIVPTA DTQYNDDEPN GAIRFTMGYQ HGQLTTSSQE 550 560 570 580 590 600 LERYTFNPQS KCGRAPKQQF NQQAPLNLEN TNNGTLLPSD PIGGKPNMHF MNTLNTYGPL 610 620 630 640 650 660 TALNNTAPVF PNGQIWDKEL DTDLKPRLHV TAPFVCKNNP PGQLFVKIAP NLTDDFNADS 670 680 690 700 710 720 PQQPRIITYS NFWWKGTLTF TAKMRSSNMW NPIQQHTTTA ENIGNYIPTN IGGIKMFPEY SQLIPRKLY
	Isoform VP2 [UniParc]. Checksum: 1762C3126D0F8E05	FASTA	579	64,265
	10 20 30 40 50 60 MSENVEQHNP INAGTELSAT GNESGGGGGG GGGRGAGGVG VSTGSFNNQT EFQYLGEGLV 70 80 90 100 110 120 RITAHASRLI HLNMPEHETY KRIHVLNSES GVAGQMVQDD AHTQMVTPWS LIDANAWGVW 130 140 150 160 170 180 FNPADWQLIS NNMTEINLVS FEQEIFNVVL KTITESATSP PTKIYNNDLT ASLMVALDTN 190 200 210 220 230 240 NTLPYTPAAP RSETLGFYPW LPTKPTQYRY YLSCTRNLNP PTYTGQSQQI TDSIQTGLHS 250 260 270 280 290 300 DIMFYTIENA VPIHLLRTGD EFSTGIYHFD TKPLKLTHSW QTNRSLGLPP KLLTEPTTEG 310 320 330 340 350 360 DQHPGTLPAA NTRKGYHQTM NNSYTEATAI RPAQVGYNTP YMNFEYSNGG PFLTPIVPTA 370 380 390 400 410 420 DTQYNDDEPN GAIRFTMGYQ HGQLTTSSQE LERYTFNPQS KCGRAPKQQF NQQAPLNLEN 430 440 450 460 470 480 TNNGTLLPSD PIGGKPNMHF MNTLNTYGPL TALNNTAPVF PNGQIWDKEL DTDLKPRLHV 490 500 510 520 530 540 TAPFVCKNNP PGQLFVKIAP NLTDDFNADS PQQPRIITYS NFWWKGTLTF TAKMRSSNMW 550 560 570 NPIQQHTTTA ENIGNYIPTN IGGIKMFPEY SQLIPRKLY

References

[1]	"Nucleotide sequence of capsid protein gene of porcine parvovirus." Sakurai M., Nishimori T., Ushimi C., Nakajima H. Virus Res. 13:79-86(1989) [PubMed: 2750278] [Abstract] Cited for: NUCLEOTIDE SEQUENCE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
PIR	A60006.
3D structure databases
ProteinModelPortal	P33484.
SMR	P33484. Positions 188-729.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
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_PAVP9

Accession

Primary (citable) accession number: P33484

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1994
Last sequence update:	February 1, 1994
Last modified:	June 28, 2011
This is version 47 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program