UniProtKB - Q9PZT0 (CAPSD_PAVHV)
Minor capsid protein VP1
vp
Functioni
Capsid protein self-assembles to form an icosahedral capsid with a T=1 symmetry, about 20 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 (PubMed:15289612).
The capsid encapsulates the genomic ssDNA (Probable). Binds to erythroid progenitor cells expressing high levels of P antigen and uses host ITGA5-ITGB1 and XRCC5/Ku80 autoantigen as coreceptors on the cell surface to provide virion attachment to target cell (PubMed:12907437, PubMed:8211117, PubMed:16076874).
This attachment induces virion internalization predominantly through clathrin-dependent endocytosis (PubMed:22718826).
Binding to the host receptors also induces capsid rearrangements leading to surface exposure of VP1 N-terminus, specifically its phospholipase A2-like region (PubMed:17020940).
The additional N-terminal region of isoform Minor capsid protein VP1, called VP1u, may serve as a lipolytic enzyme to breach the endosomal membrane during entry into host cell and might contribute to virus transport to the nucleus (PubMed:11702787).
Curated7 PublicationsCatalytic activityi
- a 1,2-diacyl-sn-glycero-3-phosphocholine + H2O = a 1-acyl-sn-glycero-3-phosphocholine + a fatty acid + H+2 PublicationsEC:3.1.1.42 Publications
GO - Molecular functioni
- metal ion binding Source: UniProtKB-KW
- phospholipase A2 activity Source: UniProtKB
- structural molecule activity Source: InterPro
GO - Biological processi
- clathrin-dependent endocytosis of virus by host cell Source: UniProtKB
- lipid catabolic process Source: UniProtKB-KW
- microtubule-dependent intracellular transport of viral material towards nucleus Source: UniProtKB-KW
- permeabilization of host organelle membrane involved in viral entry into host cell Source: UniProtKB-KW
- receptor-mediated virion attachment to host cell Source: UniProtKB
- viral entry via permeabilization of inner membrane Source: UniProtKB-KW
- viral penetration into host nucleus Source: UniProtKB
Keywordsi
Names & Taxonomyi
Protein namesi | Recommended name: Minor capsid protein VP1 (EC:3.1.1.42 Publications)Alternative name(s): Coat protein VP1 |
Gene namesi | Name:vp |
Organismi | Human parvovirus B19 (strain HV) (HPV B19) |
Taxonomic identifieri | 648237 [NCBI] |
Taxonomic lineagei | Viruses › Monodnaviria › Shotokuvirae › Cossaviricota › Quintoviricetes › Piccovirales › Parvoviridae › Parvovirinae › Erythroparvovirus › |
Virus hosti | Homo sapiens (Human) [TaxID: 9606] |
Proteomesi |
|
Subcellular locationi
- Virion 2 Publications
- Host nucleus 1 Publication
- Host cytoplasm
- Virion 1 Publication
- Host nucleus 1 Publication
- Host cytoplasm
Keywords - Cellular componenti
Capsid protein, Host cytoplasm, Host nucleus, T=1 icosahedral capsid protein, VirionPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 15 | F → C: 50% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 15 | F → W: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 16 | A → S: Almost complete loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 19 | V → A: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 19 | V → S: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 20 | Y → C: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 20 | Y → W: Almost complete loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 21 | Q → A: 80% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 21 | Q → P: 50% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 22 | Q → A: 30% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 22 | Q → P: 10% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 23 | F → S: 60% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 26 | F → S: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 27 | Y → C: 30% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 27 | Y → W: 70% loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 29 | K → A: Almost complete loss of virus internalization into the host cell. 1 Publication | 1 | |
Mutagenesisi | 130 | Y → A: Very low levels of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 132 | G → A: Complete loss of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 133 | P → R: No effect on phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 153 | H → A: Very low levels of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 154 | D → A: Complete loss of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 157 | Y → F: Very low levels of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 162 | K → R: Very low levels of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 168 | Y → F: Complete loss of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 175 | D → A: Very low levels of phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 176 | E → K: 80% loss of infectivity. 1 Publication | 1 | |
Mutagenesisi | 195 | D → A: 10% increased phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 207 | A → Y: No effect on phospholipase A2-like activity. 1 Publication | 1 | |
Mutagenesisi | 720 | K → A: Host nucleocytoplasmic localization. 1 Publication | 1 | |
Mutagenesisi | 723 – 725 | PRK → AAA: Host cytoplasmic localization. 1 Publication | 3 | |
Mutagenesisi | 723 | P → A: Host nucleocytoplasmic localization. 1 Publication | 1 | |
Mutagenesisi | 724 | R → A: Host nucleocytoplasmic localization. 1 Publication | 1 | |
Mutagenesisi | 725 | K → A: Host nucleocytoplasmic localization. 1 Publication | 1 | |
Mutagenesisi | 729 | R → A: Host nucleocytoplasmic localization. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000428714 | 1 – 781 | Minor capsid protein VP1Add BLAST | 781 |
Proteomic databases
PRIDEi | Q9PZT0 |
Interactioni
Subunit structurei
Heteromultimer of isoform Minor capsid protein VP1, isoform Minor capsid protein VP2 and isoform Major capsid protein VP3 (PubMed:15289612).
1 PublicationStructurei
3D structure databases
SMRi | Q9PZT0 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q9PZT0 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 5 – 80 | Binding to the host cell receptor and internalization1 PublicationAdd BLAST | 76 | |
Regioni | 77 – 111 | DisorderedSequence analysisAdd BLAST | 35 | |
Regioni | 123 – 181 | Phospholipase A2-like2 PublicationsAdd BLAST | 59 | |
Regioni | 524 – 561 | DisorderedSequence analysisAdd BLAST | 38 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 720 – 730 | Nuclear localization signal1 Publication1 PublicationAdd BLAST | 11 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 77 – 105 | Polar residuesSequence analysisAdd BLAST | 29 | |
Compositional biasi | 524 – 557 | Polar residuesSequence analysisAdd BLAST | 34 |
Domaini
Sequence similaritiesi
Family and domain databases
Gene3Di | 2.170.30.10, 1 hit |
InterProi | View protein in InterPro IPR016184, Capsid/spike_ssDNA_virus IPR001403, Parvovirus_coat IPR013607, Phospholipase_A2-like IPR036952, VP1/VP2 |
Pfami | View protein in Pfam PF00740, Parvo_coat, 1 hit PF08398, Phospholip_A2_4, 1 hit |
SUPFAMi | SSF88645, SSF88645, 1 hit |
s (2)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MSKESGKWWE SDDKFAKAVY QQFVEFYEKV TGTDLELIQI LKDHYNISLD
60 70 80 90 100
NPLENPSSLF DLVARIKNNL KNSPDLYSHH FQSHGQLSDH PHALSSSSSH
110 120 130 140 150
AEPRGENAVL SSEDLHKPGQ VSVQLPGTNY VGPGNELQAG PPQSAVDSAA
160 170 180 190 200
RIHDFRYSQL AKLGINPYTH WTVADEELLK NIKNETGFQA QVVKDYFTLK
210 220 230 240 250
GAAAPVAHFQ GSLPEVPAYN ASEKYPSMTS VNSAEASTGA GGGGSNPVKS
260 270 280 290 300
MWSEGATFSA NSVTCTFSRQ FLIPYDPEHH YKVFSPAASS CHNASGKEAK
310 320 330 340 350
VCTISPIMGY STPWRYLDFN ALNLFFSPLE FQHLIENYGS IAPDALTVTI
360 370 380 390 400
SEIAVKDVTD KTGGGVQVTD STTGRLSMLV DHEYKYPYVL GQGQDTLAPE
410 420 430 440 450
LPIWVYFPPQ YAYLTVGDVN TQGISGDSKK LASEESAFYV LEHSSFQLLG
460 470 480 490 500
TGGTATMSYK FPPVPPENLE GCSQHFYEMY NPLYGSRLGV PDTLGGDPKF
510 520 530 540 550
RSLTHEDHAI QPQNFMPGPL VNSVSTKEGD SSNTGAGKAL TGLSTGTSQN
560 570 580 590 600
TRISLRPGPV SQPYHHWDTD KYVPGINAIS HGQTTYGNAE DKEYQQGVGR
610 620 630 640 650
FPNEKEQLKQ LQGLNMHTYF PNKGTQQYTD QIERPLMVGS VWNRRALHYE
660 670 680 690 700
SQLWSKIPNL DDSFKTQFAA LGGWGLHQPP PQIFLKILPQ SGPIGGIKSM
710 720 730 740 750
GITTLVQYAV GIMTVTMTFK LGPRKATGRW NPQPGVYPPH AAGHLPYVLY
760 770 780
DPTATDAKQH HRHGYEKPEE LWTAKSRVHP L
The sequence of this isoform differs from the canonical sequence as follows:
1-227: Missing.
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 377 | S → C in AAB47453 (PubMed:8922470).Curated | 1 | |
Sequence conflicti | 574 | P → T in AAB47453 (PubMed:8922470).Curated | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_054247 | 1 – 227 | Missing in isoform Major capsid protein VP2. CuratedAdd BLAST | 227 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF162273 Genomic DNA Translation: AAD46614.1 AF162273 Genomic DNA Translation: AAD46615.1 U53595 Genomic DNA Translation: AAB47453.1 |
RefSeqi | YP_004928148.1, NC_000883.2 |
Genome annotation databases
GeneIDi | 11293627 |
KEGGi | vg:11293627 |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF162273 Genomic DNA Translation: AAD46614.1 AF162273 Genomic DNA Translation: AAD46615.1 U53595 Genomic DNA Translation: AAB47453.1 |
RefSeqi | YP_004928148.1, NC_000883.2 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1S58 | X-ray | 3.50 | A | 1-554 | [»] | |
SMRi | Q9PZT0 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Proteomic databases
PRIDEi | Q9PZT0 |
Protocols and materials databases
ABCDi | Q9PZT0, 2 sequenced antibodies |
Genome annotation databases
GeneIDi | 11293627 |
KEGGi | vg:11293627 |
Miscellaneous databases
EvolutionaryTracei | Q9PZT0 |
Family and domain databases
Gene3Di | 2.170.30.10, 1 hit |
InterProi | View protein in InterPro IPR016184, Capsid/spike_ssDNA_virus IPR001403, Parvovirus_coat IPR013607, Phospholipase_A2-like IPR036952, VP1/VP2 |
Pfami | View protein in Pfam PF00740, Parvo_coat, 1 hit PF08398, Phospholip_A2_4, 1 hit |
SUPFAMi | SSF88645, SSF88645, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | CAPSD_PAVHV | |
Accessioni | Q9PZT0Primary (citable) accession number: Q9PZT0 Secondary accession number(s): Q90201, Q9PZS9 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | April 16, 2014 |
Last sequence update: | May 1, 2000 | |
Last modified: | February 23, 2022 | |
This is version 74 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families