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Basic Information Integrated Annotations

Tag Content
UUCD2 ID IUUC-Ath-007230
UUCD1 version UUC-ArT-01319
Ensembl Protein ID AT4G29830.1
UniProt Accession Q9SZQ5; VIP3_ARATH
Genbank Protein ID CAB43658.1; CAB79741.1; AEE85683.1; AAP37692.1
Protein Name WD repeat-containing protein VIP3; Protein BOUQUET-1; Protein SKI8 homolog; Protein VERNALIZATION INDEPENDENCE 3; Protein ZWERGERL
Genbank Nucleotide ID AL050352; AL161575; CP002687; BT008333
Gene Name VIP3; SKI8; At4g29830; F27B13.70
Ensembl Information
Ensembl Gene ID Ensembl Transcript ID Ensembl Protein ID
AT4G29830 AT4G29830.1 AT4G29830.1
Annotation
Single Nucleotide Polymorphisms (SNP)
dbSNP
mRNA Expression
GEOArrayExpress
Protein-protein Interaction
iRefIndexMentha
Protein Expression/Proteomics
GPMDB
Status Unreviewed
Classification
Family E-Value Score Start End
E3 adaptor/Cullin RING/DCX/DWD 8.40e-38 127.6 241 272
UBD/Beta-Prp 1.20e-55 189.7 23 320
Active Site
Position(s) Description Evidence
N/A N/A N/A
Domain Profile

   E3 adaptor/Cullin RING/DCX/DWD

   S: 1    gHtdsvtclaf.sd.tllvsGsdDgtikvWDl 30
    gHt++v +++ +d + +++Gs D t+++WDl
   Q: 241 GHTSWVLSVDAsPDgGAIATGSSDRTVRLWDL 272
    8*********99999****************8 PP
   


   UBD/Beta-Prp

   S: 18   f...spdksllatgsrdgtikvwdvttgkllrslsgheaevtavkfspdgkilvtgseDrtikvwdlstgkcvhtlkghedsvlslsfspsg.dklvs 111
    + + ll+tgs d+t+k+w+ ++ +l+r+ gh+ +v+a+ +p+g i +++s D +++v+d++t+ ++ +l++ ++v+ ++f p+g v+
   Q: 23 VpatEDRPALLLTGSLDETVKLWRPDELDLVRTNTGHSLGVAALAAHPSGIIAASSSIDSFVRVFDVDTNATIAVLEAPPSEVWGMQFEPKGtILAVA 120
    35434445699***************************************999*************************************88567789 PP
   S: 112 Gshdrtirvwdletgqclee............tlsghdgvvncvvvhpdgnllvsGslDrtvrlWdlktgkllrtltgghtdsvyslsfdsng.kelv 196
    G++ +++wd+ + +++ ++ +++v +v+++p+g+ l+ Gs D+t+ ++d+ + kll++l+g h+ +v+sl f++ + l
   Q: 121 GGSSASVKLWDTASWRLISTlsiprpdapkpsDKTSSKKFVLSVAWSPNGKRLACGSMDGTICVFDVDRSKLLHQLEG-HNMPVRSLVFSPVDpRVLF 217
    999*********99999999**********98888999***************************************9.***********97757788 PP
   S: 197 sgsldgtvklwdlqtgecvrtlnghtdnvksvrfspnderlvsgssDgsiriWdlrsgdllktlqlhnssvisvav.....lsfgdnvlvlgsedskv 289
    sgs+dg v++ d + ++ + ++ ght++v+sv++sp++ +++gssD+++r+Wdl+ + ++t+++hn++v+sva+ ++ l+++s+d++v
   Q: 218 SGSDDGHVNMHDAEGKTLLGSMSGHTSWVLSVDASPDGGAIATGSSDRTVRLWDLKMRAAIQTMSNHNDQVWSVAFrppggTGVRAGRLASVSDDKSV 315
    ****************************************************************************7776666668889********* PP
   S: 290 niwkl 294
    ++++
   Q: 316 SLYDY 320
    ***98 PP
   

Organism Arabidopsis thaliana
Functional Description
(View)

Functional Description



     Component of the PAF1 complex (PAF1C) which is involved in histone modifications such as methylation on histone H3 'Lys-4' (H3K4me3) (PubMed:20363855). Involved in regulation of flowering time. Required for the expression of the flowering repressor and MADS box gene FLC (PubMed:12750345, PubMed:18725930). Required for histone H3 trimethylation on 'Lys-4' (H3K4me3) and histone dimethylation on 'Lys-36' (H3K36me2) at the FLC locus. Prevents trimethylation on 'Lys-27' (H3K27me3) at the same locus (PubMed:18725930). Not required for meiotic recombination or progression (PubMed:16716192). Component of the SKI complex which is thought to be involved in exosome-mediated RNA decay and associates with transcriptionally active genes in a manner dependent on PAF1 complex (PAF1C) (PubMed:22511887). Required for proper progression of cell differentiation process (PubMed:23134555).
Component of the PAF1 complex (PAF1C) which is involved in histone modifications such as methylation on histone H3 'Lys-4' (H3K4me3) (PubMed:20363855). Involved in regulation of flowering time. Required for the expression of the flowering repressor and MADS box gene FLC (PubMed:12750345, PubMed:18725930). Required for histone H3 trimethylation on 'Lys-4' (H3K4me3) and histone dimethylation on 'Lys-36' (H3K36me2) at the FLC locus. Prevents trimethylation on 'Lys-27' (H3K27me3) at the same locus (PubMed:18725930). Not required for meiotic recombination or progression (PubMed:16716192). Component of the SKI complex which is thought to be involved in exosome-mediated RNA decay and associates with transcriptionally active genes in a manner dependent on PAF1 complex (PAF1C) (PubMed:22511887). Required for proper progression of cell differentiation process (PubMed:23134555).
Protein Sequence
(Fasta)
MKLAGLKSIE NAHEDSVWAA TWVPATEDRP ALLLTGSLDE TVKLWRPDEL DLVRTNTGHS 60
LGVAALAAHP SGIIAASSSI DSFVRVFDVD TNATIAVLEA PPSEVWGMQF EPKGTILAVA 120
It may take some time, please wait.

Protein Fasta Sequence



>IUUC-Ath-007230|E3,WD_repeat;UBD,Beta-Prp|Arabidopsis thaliana
Please wait for a moment...
Nucleotide Sequence
(Fasta)
AAACAAGAAT ACGGAACGAT GTTAAACACT CTATTGTTTC CAACTACTAA AAACGACGCG 60
AGTTTCTATT TTATAACTAA AAAACGAGAA TCAAAGTCTC TGTTTCAAAT TTGGGTCTTT 120
It may take some time, please wait.

Nucleotide Fasta Sequence



>IUUC-Ath-007230|E3,WD_repeat;UBD,Beta-Prp|Arabidopsis thaliana
Please wait for a moment...
Sequence Source Ensembl
Keyword

KW-0181--Complete proteome
KW-0963--Cytoplasm
KW-0287--Flowering
KW-0539--Nucleus
KW-1185--Reference proteome
KW-0677--Repeat
KW-0804--Transcription
KW-0805--Transcription regulation
KW-0853--WD repeat

Interpro

IPR024977--Apc4_WD40_dom
IPR020472--G-protein_beta_WD-40_rep
IPR015943--WD40/YVTN_repeat-like_dom
IPR001680--WD40_repeat
IPR019775--WD40_repeat_CS
IPR017986--WD40_repeat_dom

PROSITE

PS00678--WD_REPEATS_1
PS50082--WD_REPEATS_2
PS50294--WD_REPEATS_REGION

Pfam

PF12894--ANAPC4_WD40
PF00400--WD40

PRINTS

PR00320--GPROTEINBRPT

SMART

SM00320--WD40

Gene Ontology

GO:0016593--C:Cdc73/Paf1 complex
GO:0080008--C:Cul4-RING E3 ubiquitin ligase complex
GO:0005829--C:cytosol
GO:0005634--C:nucleus
GO:0009908--P:flower development
GO:0010452--P:histone H3-K36 methylation
GO:0051568--P:histone H3-K4 methylation
GO:0009910--P:negative regulation of flower development
GO:0016441--P:posttranscriptional gene silencing
GO:0006355--P:regulation of transcription, DNA-templated
GO:0006351--P:transcription, DNA-templated

KEGG ath:AT4G29830
Orthology
iUUCD ID Species Identity E-value Score
IUUC-Ata-000774 Aegilops tauschii 63.11 5.00e-116 410.00
IUUC-Aml-002245 Ailuropoda melanoleuca 37.18 9.00e-53 199.00
IUUC-Atr-003142 Amborella trichopoda 72.99 6.00e-91 325.00
IUUC-Apl-003179 Anas platyrhynchos 37.82 2.00e-57 214.00
IUUC-Aca-004880 Anolis carolinensis 37.50 5.00e-61 227.00
IUUC-Aly-005956 Arabidopsis lyrata 98.13 0.00e+00 637.00
IUUC-Ame-011511 Astyanax mexicanus 38.22 3.00e-57 214.00
IUUC-Bta-012936 Bos taurus 37.50 2.00e-53 201.00
IUUC-Bdi-015020 Brachypodium distachyon 69.04 5.00e-112 396.00
IUUC-Bol-016345 Brassica oleracea 98.13 0.00e+00 635.00
IUUC-Bra-017323 Brassica rapa 97.82 0.00e+00 634.00
IUUC-Cja-019961 Callithrix jacchus 37.50 3.00e-53 201.00
IUUC-Cfa-020862 Canis familiaris 37.50 3.00e-53 201.00
IUUC-Cpo-021356 Cavia porcellus 37.18 5.00e-53 200.00
IUUC-Cre-022602 Chlamydomonas reinhardtii 41.21 5.00e-52 197.00
IUUC-Csa-024067 Chlorocebus sabaeus 37.50 4.00e-53 201.00
IUUC-Cho-024421 Choloepus hoffmanni 40.50 5.00e-19 86.70
IUUC-Cin-025261 Ciona intestinalis 37.82 2.00e-60 225.00
IUUC-Cne-026846 Cryptococcus neoformans 28.22 5.00e-25 107.00
IUUC-Dre-027706 Danio rerio 31.73 2.00e-38 152.00
IUUC-Dno-029084 Dasypus novemcinctus 37.58 6.00e-52 197.00
IUUC-Dor-030353 Dipodomys ordii 33.21 9.00e-42 162.00
IUUC-Dme-031836 Drosophila melanogaster 34.81 2.00e-52 199.00
IUUC-Ete-032261 Echinops telfairi 37.42 5.00e-52 197.00
IUUC-Eca-034231 Equus caballus 33.96 8.00e-44 169.00
IUUC-Eeu-034828 Erinaceus europaeus 36.89 8.00e-50 189.00
IUUC-Fca-036569 Felis catus 37.18 6.00e-53 200.00
IUUC-Fal-037469 Ficedula albicollis 38.14 1.00e-57 216.00
IUUC-Fox-038047 Fusarium oxysporum 27.61 4.00e-24 104.00
IUUC-Gmo-039579 Gadus morhua 38.78 7.00e-58 216.00
IUUC-Gga-040808 Gallus gallus 37.50 3.00e-56 211.00
IUUC-Gac-042100 Gasterosteus aculeatus 39.10 2.00e-58 218.00
IUUC-Gma-044408 Glycine max 78.82 2.00e-150 524.00
IUUC-Ggo-045227 Gorilla gorilla 37.50 3.00e-53 201.00
IUUC-Hsa-045839 Homo sapiens 37.50 3.00e-53 201.00
IUUC-Hvu-047591 Hordeum vulgare 67.49 3.00e-118 417.00
IUUC-Itr-048741 Ictidomys tridecemlineatus 37.50 2.00e-53 201.00
IUUC-Lch-049549 Latimeria chalumnae 36.22 2.00e-53 201.00
IUUC-Lpe-050746 Leersia perrieri 69.54 2.00e-118 417.00
IUUC-Loc-052540 Lepisosteus oculatus 38.14 4.00e-54 204.00
IUUC-Laf-053907 Loxodonta africana 37.50 2.00e-53 201.00
IUUC-Mcc-055828 Macaca mulatta 35.24 6.00e-50 190.00
IUUC-Meu-056075 Macropus eugenii 36.50 4.00e-47 180.00
IUUC-Mtr-057728 Medicago truncatula 78.82 6.00e-137 479.00
IUUC-Mga-059872 Meleagris gallopavo 37.82 2.00e-57 214.00
IUUC-Mmr-060985 Microcebus murinus 37.10 5.00e-52 197.00
IUUC-Mdo-062758 Monodelphis domestica 37.82 3.00e-57 214.00
IUUC-Mmu-063580 Mus musculus 37.18 1.00e-52 199.00
IUUC-Mac-064880 Musa acuminata 77.64 3.00e-148 517.00
IUUC-Mpu-066577 Mustela putorius furo 37.18 2.00e-52 198.00
IUUC-Nle-069573 Nomascus leucogenys 37.50 3.00e-53 201.00
IUUC-Opr-070216 Ochotona princeps 37.18 1.00e-52 199.00
IUUC-Ont-071981 Oreochromis niloticus 39.42 3.00e-58 217.00
IUUC-Oan-073223 Ornithorhynchus anatinus 38.28 3.00e-38 150.00
IUUC-Ocu-074199 Oryctolagus cuniculus 34.45 6.00e-44 170.00
IUUC-Oba-075255 Oryza barthii 62.31 7.00e-102 362.00
IUUC-Obr-076168 Oryza brachyantha 71.23 2.00e-85 308.00
IUUC-Ogl-077777 Oryza glaberrima 69.75 3.00e-118 417.00
IUUC-Ogu-078780 Oryza glumaepatula 69.75 3.00e-118 417.00
IUUC-Oin-079228 Oryza indica 69.75 6.00e-121 426.00
IUUC-Olo-080617 Oryza longistaminata 75.69 4.00e-65 239.00
IUUC-Ome-081421 Oryza meridionalis 68.52 2.00e-117 414.00
IUUC-Oni-082997 Oryza nivara 69.75 6.00e-121 426.00
IUUC-Opu-083931 Oryza punctata 69.97 6.00e-120 422.00
IUUC-Oru-084645 Oryza rufipogon 69.75 3.00e-118 417.00
IUUC-Osa-085842 Oryza sativa 69.75 6.00e-121 426.00
IUUC-Ola-086696 Oryzias latipes 38.78 1.00e-55 209.00
IUUC-Olu-087643 Ostreococcus lucimarinus 47.79 2.00e-55 207.00
IUUC-Oga-088272 Otolemur garnettii 37.82 1.00e-53 202.00
IUUC-Oar-089416 Ovis aries 37.50 2.00e-53 201.00
IUUC-Ptr-090944 Pan troglodytes 37.50 3.00e-53 201.00
IUUC-Pan-091861 Papio anubis 37.50 3.00e-53 201.00
IUUC-Psi-093750 Pelodiscus sinensis 38.14 2.00e-57 215.00
IUUC-Pma-094608 Petromyzon marinus 37.22 2.00e-50 192.00
IUUC-Ppa-095737 Physcomitrella patens 65.12 5.00e-126 443.00
IUUC-Pfo-096479 Poecilia formosa 39.10 5.00e-54 203.00
IUUC-Pab-098179 Pongo abelii 37.50 3.00e-53 201.00
IUUC-Pop-099532 Populus trichocarpa 79.18 6.00e-139 486.00
IUUC-Ppe-102056 Prunus persica 76.01 3.00e-143 499.00
IUUC-Pva-102859 Pteropus vampyrus 37.18 4.00e-52 197.00
IUUC-Rno-105826 Rattus norvegicus 37.18 3.00e-52 197.00
IUUC-Sha-106660 Sarcophilus harrisii 36.86 2.00e-52 198.00
IUUC-Spo-108244 Schizosaccharomyces pombe 25.26 5.00e-24 103.00
IUUC-Smo-109234 Selaginella moellendorffii 59.81 2.00e-107 380.00
IUUC-Sit-110048 Setaria italica 69.35 3.00e-106 377.00
IUUC-Sly-111618 Solanum lycopersicum 69.66 8.00e-125 439.00
IUUC-Stu-112543 Solanum tuberosum 69.97 2.00e-128 451.00
IUUC-Sar-113743 Sorex araneus 37.39 2.00e-37 148.00
IUUC-Sbi-114309 Sorghum bicolor 67.80 3.00e-104 370.00
IUUC-Ssc-115560 Sus scrofa 35.58 3.00e-48 184.00
IUUC-Tgu-117300 Taeniopygia guttata 37.82 3.00e-57 214.00
IUUC-Tru-117933 Takifugu rubripes 39.10 2.00e-58 218.00
IUUC-Tsy-119574 Tarsius syrichta 31.73 1.00e-35 142.00
IUUC-Tni-120191 Tetraodon nigroviridis 38.96 1.00e-41 162.00
IUUC-Tca-120983 Theobroma cacao 81.37 6.00e-145 506.00
IUUC-Tae-124056 Triticum aestivum 69.66 6.00e-117 412.00
IUUC-Tur-126711 Triticum urartu 68.21 3.00e-113 400.00
IUUC-Tbe-127802 Tupaia belangeri 37.18 6.00e-53 200.00
IUUC-Vpa-130618 Vicugna pacos 38.52 3.00e-45 174.00
IUUC-Vvi-130981 Vitis vinifera 82.24 3.00e-147 513.00
IUUC-Xtr-132460 Xenopus tropicalis 37.82 3.00e-55 207.00
IUUC-Xma-134154 Xiphophorus maculatus 39.10 3.00e-54 204.00
Created Date 25-Jun-2017

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