UniProtKB - B9UYK7 (CAPSD_HBOC2)
Minor capsid protein VP1
VP1
Functioni
Capsid proteins self-assembles to form an icosahedral capsid with a T=1 symmetry, about 26 nm in diameter, and consisting of 60 copies of three size variants of the capsid proteins, VP1, and VP3, which differ by the presence of an N-terminal extension in the minor protein VP1. The capsid has a channel at the 5-fold axis and there are densities extending the 5-fold axis into the interior of the capsid. The capsid encapsulates the genomic ssDNA (By similarity).
Binding to the host receptors also induces capsid rearrangements leading to surface exposure of VP1 N-terminus, specifically its phospholipase A2-like region. 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 (By similarity).
By similarityCaution
Catalytic activityi
- a 1,2-diacyl-sn-glycero-3-phosphocholine + H2O = a 1-acyl-sn-glycero-3-phosphocholine + a fatty acid + H+By similarityEC:3.1.1.4By similarity
GO - Molecular functioni
- phospholipase A2 activity Source: UniProtKB-EC
- structural molecule activity Source: InterPro
GO - Biological processi
- lipid catabolic process Source: UniProtKB-KW
Keywordsi
Molecular function | Hydrolase |
Biological process | Lipid degradation, Lipid metabolism |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:VP1 |
Organismi | Human bocavirus 2 (HBoV2) (Human bocavirus type 2) |
Taxonomic identifieri | 573977 [NCBI] |
Taxonomic lineagei | Viruses › Monodnaviria › Shotokuvirae › Cossaviricota › Quintoviricetes › Piccovirales › Parvoviridae › Parvovirinae › Bocaparvovirus › Primate bocaparvovirus 2 |
Virus hosti | Homo sapiens (Human) [TaxID: 9606] |
Proteomesi |
|
Subcellular locationi
- Virion By similarity
- Host nucleus By similarity
- Host cytoplasm By similarity Note: Slightly detected in the cytoplasm, mainly seen in the nucleus.By similarity
- Virion By similarity
- Virion By similarity
- Host nucleus By similarity
- Host cytoplasm By similarity Note: Slightly detected in the cytoplasm, mainly seen in the nucleus.By similarity
Keywords - Cellular componenti
Capsid protein, Host cytoplasm, Host nucleus, T=1 icosahedral capsid protein, VirionPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000445382 | 1 – 667 | Minor capsid protein VP1Add BLAST | 667 |
Interactioni
Subunit structurei
Heteromultimer of isoform Minor capsid protein VP1, isoform Minor capsid protein VP2 and isoform Major capsid protein VP3 (By similarity).
By similarityHeteromultimer of isoform Minor capsid protein VP1, isoform Minor capsid protein VP2 and isoform Major capsid protein VP3 (By similarity).
By similarityHomomultimer (By similarity). 10 fold more abundant than the minor capsid proteins VP1 and VP2 (By similarity). Heteromultimer of isoform Minor capsid protein VP1, isoform Minor capsid protein VP2 and isoform Major capsid protein VP3 (By similarity).
By similarityFamily & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 11 – 66 | Phospholipase A2-likeBy similarityAdd BLAST | 56 | |
Regioni | 107 – 159 | DisorderedSequence analysisAdd BLAST | 53 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 610 – 621 | Nuclear localization signalBy similarityAdd BLAST | 12 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 124 – 143 | Polar residuesSequence analysisAdd BLAST | 20 |
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 (3)i Sequence
Sequence statusi: Complete.
This entry describes 3 produced by isoformsialternative initiation. 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
MPPIKRQPGG WVLPGYKYLG PFNPLENGEP VNKADRAAQA HDKSYSEIIK
60 70 80 90 100
SGKNPYLYFN KADEKFIDDL KNDWSLGGII GSSFFKLKRA VAPALGNKER
110 120 130 140 150
AQKRHFYFAN SNKGAKKPKN NEPKPGTSKM SENEIQDQQP SGSMEERGGG
160 170 180 190 200
GGAVGSVGGG KGSSVGISTG GWVGGSYFTD SYVITKNTRQ FLVKIQNDHK
210 220 230 240 250
YRTENIIPSN AGGKSQRCVS TPWSYFNFNQ YSSHFSPQDW QHLTNEYKRF
260 270 280 290 300
KPRKMHVKIY NLQIKQILSN GADTTYNNDL TAGVHIFCDG EHAYPNATHP
310 320 330 340 350
WDEDVMPELP YETWYLFQYG YIPVIHELAE MEDANAVEKA IALQIPFFML
360 370 380 390 400
ENSDHEVLRT GESTEFTFDF DCEWINNERA YIPPGLMFNP KVPTRRAQYI
410 420 430 440 450
RQHGNTASSN TRIQPYAKPT SWMTGPGLLS AQRVGPAGSD TASWMVVVNP
460 470 480 490 500
DGAAVNSGMA GVGSGFDPPS GSLRPTDLEY KIQWYQTPAG TNSDGNIISN
510 520 530 540 550
PPLSMLRDQA LYRGNQTTYN LCSDVWMFPN QIWDRYPITR ENPIWCKKPR
560 570 580 590 600
SDKNTIIDPF DGTLAMDHPP GTIFIKMAKI PVPSNNNADS YLNIYCTGQV
610 620 630 640 650
SCEIVWEVER YATKNWRPER RHTALGLGIG GEENVNPTYH VDKNGKYIQP
660
TTWDMCYPIK TNINKVL
The sequence of this isoform differs from the canonical sequence as follows:
1-90: Missing.
91-91: V → M
The sequence of this isoform differs from the canonical sequence as follows:
1-129: Missing.
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_059857 | 1 – 129 | Missing in isoform Major capsid protein VP3. Add BLAST | 129 | |
Alternative sequenceiVSP_059858 | 1 – 90 | Missing in isoform Minor capsid protein VP2. Add BLAST | 90 | |
Alternative sequenceiVSP_059864 | 91 | V → M in isoform Minor capsid protein VP2. | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | FJ170278 Genomic DNA Translation: ACJ38933.1 FJ170278 Genomic DNA Translation: ACJ38934.1 |
RefSeqi | YP_002586775.1, NC_012042.1 YP_002586776.1, NC_012042.1 |
Genome annotation databases
GeneIDi | 7755624 7755625 |
KEGGi | vg:7755624 vg:7755625 |
Keywords - Coding sequence diversityi
Alternative initiationSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | FJ170278 Genomic DNA Translation: ACJ38933.1 FJ170278 Genomic DNA Translation: ACJ38934.1 |
RefSeqi | YP_002586775.1, NC_012042.1 YP_002586776.1, NC_012042.1 |
3D structure databases
SMRi | B9UYK7 |
ModBasei | Search... |
Protocols and materials databases
DNASUi | 7755624 |
Genome annotation databases
GeneIDi | 7755624 7755625 |
KEGGi | vg:7755624 vg:7755625 |
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_HBOC2 | |
Accessioni | B9UYK7Primary (citable) accession number: B9UYK7 Secondary accession number(s): B9UYK8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 10, 2018 |
Last sequence update: | March 24, 2009 | |
Last modified: | February 23, 2022 | |
This is version 40 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |