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 Tp2g26510
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family Trihelix
Protein Properties Length: 916aa    MW: 101251 Da    PI: 8.5628
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp2g26510genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix636.6e-20824904186
   trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                +W+ +ev++ i++r e+++r++  k +++lWee+s++++++g++rsp qCk+ w +l ++y+++k+ e+++     +++++f++++
  Tp2g26510 824 KWKPEEVKKVIKMRGELHSRFQVVKGRMALWEEISSNLSAEGINRSPGQCKSLWASLIQKYEECKADERSK-----TSWSHFEDMN 904
                7********************************************************************95.....359****996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.104.2E-67111361IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.18E-71112526IPR001279Metallo-beta-lactamase
SMARTSM008491.8E-24124321IPR001279Metallo-beta-lactamase
PfamPF127068.9E-11136271IPR001279Metallo-beta-lactamase
PfamPF075215.6E-7466498IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.956817881IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.2E-5819883IPR009057Homeodomain-like
PfamPF138375.5E-17822905No hitNo description
CDDcd122032.85E-22823888No 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: 916 aa     Download sequence    Send to blast
MKPTASLQGF FSYPSSSIYF DARRPVTTAN PSKMAAFSAL SLCPYTFTFR HSSRIRSTVS  60
CSVASPPASG TSSSSKTPRR RSGRLEGAGK SMEDSVKRKM EQFYEGTDGP PLRVLPIGGL  120
GEIGMNCMLV GNYDRYILID AGIMFPDYDD PGVQKIMPDT GFIRRWKHKI EAVVITHGHE  180
DHIGALPWVI PALDSNTPIF ASSFTMELIK KRLKEHGIFV QSRLKTFNTR RRFMAGPFEI  240
EPITVTHSIP DCSGLVLRCA DGNILHTGDW KIDEAPVDGK VFDRVALEEL SKEGVTLMMS  300
DSTNVLSPGR TTSEKVVADA LARNVMAAKG RVITTQFASN IHRLGSIKAA ADLTGRKLVF  360
VGMSLRTYLE AAWRDGKAPI DPSSLVKVED IEAYAPKDLL IVTTGSQAEP RAALNLASYG  420
SSHAFKLTKE DVILYSAKVI PGNESRVMKM MNRIADIGPN IIMGKNEMLH TSGHAYRGEL  480
EEVLKIVKPQ HFLPIHGELL FLKEHELLGK STGIRHTTVI KNGEMLGVSH LRNRRVLSNG  540
FSFLGRENLQ LMYSDGDKAF GTSSELCIDE RLRISSDGII VLSMEIMRPG VSENSLKGKI  600
RITTRCMWLD KGRLLDALHK AAHAALSSCP VNCPLSHMER TVSEVLRKIV RKYSGKRPEV  660
IAIATENPMA VRADEVSARL SGDPNLGSGV AALRKVVEGN NKRNRPKKAP SQEDSPKEVD  720
RTLEDDLIDS ARLLAEEETS ASSYTVDADD VPVRSSSEES DDFWKSFINP SSPPSPGETV  780
NVNKVTDAEP KAEDSESSRD DNDDPSDATD SQTKSSLKRV RRNKWKPEEV KKVIKMRGEL  840
HSRFQVVKGR MALWEEISSN LSAEGINRSP GQCKSLWASL IQKYEECKAD ERSKTSWSHF  900
EDMNTILSEL DTPAPK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-8511266619560RIBONUCLEASE J
5a0t_B1e-8511266619560RIBONUCLEASE J
5a0v_A1e-8511266619560RIBONUCLEASE J
5a0v_B1e-8511266619560RIBONUCLEASE 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp2g26510
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
GenBankAK2212720.0AK221272.1 Arabidopsis thaliana mRNA for putative protein, complete cds, clone: RAFL24-15-P14.
GenBankBT0042100.0BT004210.1 Arabidopsis thaliana clone RAFL16-01-C03 (R50172) unknown protein (At5g63420) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006394279.10.0uncharacterized protein LOC18013384
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLV4K1180.0V4K118_EUTSA; Uncharacterized protein
STRINGXP_006394279.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95392634
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]