PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSVIVT01008515001
Common NameVIT_17s0000g01640
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family Trihelix
Protein Properties Length: 1660aa    MW: 186253 Da    PI: 7.0697
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01008515001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.21.3e-1915671647186
           trihelix    1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86  
                         +W+ +ev++Li +r e++++++  k++++lWee++ ++ + g+ r+p qCk+ w +l ++y++ik  +k+r     +++p+f++++
  GSVIVT01008515001 1567 KWKPEEVKKLISMRGELHSKFQVVKRRMALWEEIATNLLADGIDRTPGQCKSLWTSLVQKYQEIKGDKKSR-----KSWPHFEDMN 1647
                         7*****************************************************************99996.....56******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS51386125.876187712IPR007528RINT-1/Tip20
PfamPF044376.1E-30270732IPR007528RINT-1/Tip20
Gene3DG3DSA:3.60.15.104.1E-678501100IPR001279Metallo-beta-lactamase
SuperFamilySSF562816.45E-718511265IPR001279Metallo-beta-lactamase
SMARTSM008499.9E-268631060IPR001279Metallo-beta-lactamase
PfamPF127061.3E-98751010IPR001279Metallo-beta-lactamase
PfamPF075212.4E-512061237IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.14215601624IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.601.9E-515631626IPR009057Homeodomain-like
PfamPF138372.3E-1815651649No hitNo description
CDDcd122032.92E-2215661631No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0048193Biological ProcessGolgi vesicle transport
GO:0060918Biological Processauxin transport
GO:0005783Cellular Componentendoplasmic reticulum
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1660 aa     Download sequence    Send to blast
MEALALPNPS ELSPHLLGFL DHRFGTLEDL LTAPNLAVEL SKICSDLDAD LSAFHRNLKT  60
LIASWTRRSI AAKTAVLRLN YRLQNLGVLA SQNDVVLSQD LPRLARELLR VEAVRGYAET  120
ALRLEALIGD LEDVIFTENV AGTVKQERVI GAVKIVADID SVLANVAEFQ PRWRRLLNSV  180
DDRVEKALSI LRTRVVASHR TLLSSLGWPP KLSVSKIENG GVSAIPNPLM LMRGEKRESY  240
SQSFVALCAL QHVREKRRHS DDLGFKAKLW AIDELVSPIA SRIEYHFSKW VDQPEFIFAL  300
VRKITSDFAV GVEEVLQPLI DEARLVGCSA KEAWVSAMVQ MLSGFLGHRV FSVLAQRYKE  360
KEKKLEVGSS WLHLIDLIVA FNKQMQSLVN SESYLLASEL DRAWLVESKK GVDVLTNKET  420
ERFLLSTRED HRAPVIAESA LKMAWEMIDR GQTLPAILPR IQFIRSTAAR FLWYFLNVLL  480
LRWKGTDLSP ENPDDETLMR ACGLINAAGY CEFKLQQWSD DVNFLEMKMA ETESKNPVKD  540
NTNDHSCFFD EEIKSLDELE TNWLMEIVAN LLRQFELLSW EYMENLKHFD QEQNRFCPTT  600
TSAAMDLAIS HDLIEALDAL RSQLLVIERS LNPRDFLDLW RSVAEGLDHF IFSSIFGIDI  660
GFSEEGVNQI GADMRALFSV FQPFCARPEA FFPCIRDSLR LLEMDKGEVK YLQAVLSSDE  720
NRIKCLRSCG ISHVSFGQGF VSSLETSLHT GTSRVFFFFH TLSCRPNKIV AEYMAAFSAL  780
SSCPYTLPYR PKPSNRSILC RMGSAPTSVG TSVSKVPRKR SRRMEGVKKS MEDSVQRKME  840
QFYEGSEGPP LRVLPIGGLG EIGMNCMLVG NYDRYILIDA GVMFPDYDEL GVQKIIPDTT  900
FIKKWSHKIE AVVITHGHED HIGALPWVIP ALDSHTPIFA SSFTMELIKK RLKEFGIFVP  960
SRLKVFRTRK KFIAGPFEIE PIRVTHSIPD CCGLVIRCAD GTILHTGDWK IDESPLDGKV  1020
FDREALEELS KEGVTLMMSD STNVLSPGRT ISESVVADAL LRHISSAKGR VITTQFASNI  1080
HRLGSVKAAA DLTGRKLVFV GMSLRTYLDA AWKDGKAPID PSTLVKVEDI DAYAPKDLLI  1140
VTTGSQAEPR AALNLASYGS SHSLKLSKED IILYSAKVIP GNETRVMKML NRVSEIGSTI  1200
IMGKNEGLHT SGHGYRGELE EVLKIVKPQH FLPIHGELLF LKEHELLGKS TGIRHTTVIK  1260
NGEMLGVSHL RNRRVLSNGF ISLGKENLQL MYNDGDKAFG TSTELCIDER LRIASDGIIV  1320
ISMEILRPQV VDGVTEKSLK GKIRITTRCL WLDKGKLLDA LHKAAHAALS SCPVNCPLAH  1380
MERTVSEVLR KMVRKYSSKR PEVIAIAIEN PSAVLAGELN ARLSGKSHVG FGASALREVV  1440
DEYPKKRRMN RMQEEAGGHI QVENTSQQDL KGDDGVEVQR LLSEEETNSS SSNSAEIFSP  1500
DSGDTEDFWK SFIDSSSPVD QLMEDKISFV PQGYPMELKK DSEIREVDSS EVPKSQPKSP  1560
KPMKRNKWKP EEVKKLISMR GELHSKFQVV KRRMALWEEI ATNLLADGID RTPGQCKSLW  1620
TSLVQKYQEI KGDKKSRKSW PHFEDMNEIL SDLEPMAPK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-84851140919560RIBONUCLEASE J
5a0t_B1e-84851140919560RIBONUCLEASE J
5a0v_A1e-84851140919560RIBONUCLEASE J
5a0v_B1e-84851140919560RIBONUCLEASE J
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.162270.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the early stages of embryo development, first observed at the transition stage. In the heart and torpedo stages, predominantly present in the upper part of embryos. In seedlings, strongly expressed in shoot meristems, hypocotyls, in the vascular bundles of cotyledons, and in the veins of mature leaves. In reproductive organs, detected in inflorescences, especially in sepals, filaments, and stigmas, as well as in mature siliques and seeds. {ECO:0000269|PubMed:25871650}.
UniprotTISSUE SPECIFICITY: Moslty expressed in inflorescences, seedlings, leaves, flowers and flower buds, and, to a lower extent, in stems, siliques and roots. {ECO:0000269|PubMed:25871650}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4811710.0AM481171.2 Vitis vinifera contig VV78X276913.12, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002279798.10.0PREDICTED: uncharacterized protein LOC100268000 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLF6GST50.0F6GST5_VITVI; Uncharacterized protein
STRINGVIT_17s0000g01640.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP30821521
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.10.0Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]