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 Cucsa.157420.1
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family Trihelix
Protein Properties Length: 962aa    MW: 106223 Da    PI: 8.2601
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.157420.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.41.1e-19869948185
        trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdql 85 
                     +W+ +e+++Li++r e+++r++ ++ +++lWee+s+ m++ g++rsp qCk+ w +l +++++ k  +k++     + +py++++
  Cucsa.157420.1 869 KWKPEEIKKLIKLRGELHDRFQVARGRMALWEEISNGMSADGINRSPGQCKSLWASLVQKFEESKSEKKSK-----KGWPYLEEM 948
                     7**************************************************************99999984.....57*****99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.0E-6899349IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.07E-70100502IPR001279Metallo-beta-lactamase
SMARTSM008495.6E-25112309IPR001279Metallo-beta-lactamase
PfamPF127063.1E-11124259IPR001279Metallo-beta-lactamase
PfamPF075211.6E-5455486IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.095862926IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.601.3E-5863928IPR009057Homeodomain-like
PfamPF138374.2E-17867949No hitNo description
CDDcd122038.41E-22868929No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0060918Biological Processauxin transport
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 962 aa     Download sequence    Send to blast
MQSEFLGSFS ILGSPHSAPY KQRMASFGAL SLCPCSPLLR PHHPVRTIYC CRGSPTVLGK  60
NVSKVPRKRP GRLEGAKRSM EDSVQRKMEQ FYEGSDGPPL RVLPIGGLGE IGMNCMLVGN  120
YDRYILIDAG VMFPDHDELG VQKIIPDTTF IKRWSHKIEA VVITHGHEDH IGALPWVIPA  180
LDSHTPIYAS SFTVELIKKR LKENGIFVPS RLKVFKMRKK FTAGPFEIEP IRVTHSIPDC  240
CGLVLRCTDG TILHTGDWKI DESPLDGKVF DRETLEQLSK EGVTLMMSDS TNVLSPGRTI  300
SESVVADALL RRISAAKGRV ITTQFASNIH RLGSVKAAAD LTGRKLVFVG MSLRTYLDAA  360
WKDGKAPIDP STLVKVEDID AYAPKDLLIV TTGSQAEPRA ALNLASYGSS HSLKLSKEDM  420
ILYSAKVIPG NESRVMKMLN RISEIGSNII MGKNELLHTS GHGYRGELEE VLQIVKPQHF  480
LPIHGELLFL KEHELLGRST GIRHTTRTLE VIEVLSNVNY SMILNTPKGK ILATGGNRLG  540
DHFSPFLFTL VLNLNCWLLS GGLEMLGVSH LRNRRVLSNG FTSLGRENLQ LKYSDGDKAF  600
GSSSELFVDE RLKIATDGII VVSMEILRPQ SVDGLNGTGI KGKLRITTRC LWLDKGKLLD  660
ALHKAAHAAL SSCPLNCPLA HMERTVAELL RKMVRKYSGK RPEVIVMAVE SPVGVLAEEL  720
GARLAGKSNS GFGMSASRKA VDGQPTKSHL NSIRPDGNND LHSEDNSSQE SQGYHLESER  780
LLPEEDYDTT NLNLTETQSI DNEGLEDFWK PFITPSSPAN ELAMDNEGSV QHSESTLEIS  840
NEREEVSDDK SLKTSNSDVN SSKPVKRNKW KPEEIKKLIK LRGELHDRFQ VARGRMALWE  900
EISNGMSADG INRSPGQCKS LWASLVQKFE ESKSEKKSKK GWPYLEEMSG ILSDSEAVAT  960
K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-8210050419419RIBONUCLEASE J
5a0t_B1e-8210050419419RIBONUCLEASE J
5a0v_A1e-8210050419419RIBONUCLEASE J
5a0v_B1e-8210050419419RIBONUCLEASE J
Search in ModeBase
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
GenBankLN6818140.0LN681814.1 Cucumis melo genomic scaffold, anchoredscaffold00089.
GenBankLN7132560.0LN713256.1 Cucumis melo genomic chromosome, chr_2.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004138055.10.0PREDICTED: uncharacterized protein LOC101215740 isoform X2
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0A0LRV70.0A0A0A0LRV7_CUCSA; Uncharacterized protein
STRINGXP_004161356.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
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]