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 Traes_6DL_88259C187.1
Organism
Triticum aestivum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum
Family Trihelix
Protein Properties Length: 419aa    MW: 47000.1 Da    PI: 9.264
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Traes_6DL_88259C187.1genomeIWGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.11.3e-19327407186
               trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                            +W+ +e++ Li++r em+e++++ k ++ lWee+s  + ++g++r+p qCk+ w +l ++y++ k+ e++      +t++yf+ ++
  Traes_6DL_88259C187.1 327 KWKPEEIKSLIQLRGEMNEKFQTVKGRMVLWEEISGSLLKQGITRTPAQCKSVWTSLLQKYEESKKDEEN-----MRTWQYFSAMD 407
                            7*****************************************************************9998.....479******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF562815.68E-817100IPR001279Metallo-beta-lactamase
PfamPF075215.1E-74372IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.084320384IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.5E-6322386IPR009057Homeodomain-like
SMARTSM007170.005324386IPR001005SANT/Myb domain
PfamPF138371.2E-16326408No hitNo description
CDDcd122033.33E-21326391No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 419 aa     Download sequence    Send to blast
MARSVGSSGP FVVIPGNESR VMKMLNRLTD LGPKIVMGKD AGLHTSGHAY HDELEEVLQI  60
VKPQHFLPVH GELLFLKEHE LLGRSTGIKH TTVIKNGEML GVSHLRNRKV LSNGFVSLGK  120
QDFKLMYSDG DKAFGTSTDL CIDERFRIAS DGIIFVSMEI FRPKPASPQS GLKGKFKITT  180
RCLWLDYGRL LDALYKAAHA ALSSCPLNCP LSHMERMVSE ILRKMVRKYS GKRPDVIVVA  240
SENTTVGFSE EVINRHMSLV DYEKTRPENP EREAEESIPE VMRTTPDDAT TSSNAQGNKP  300
KLGKISIIDK DSSTSAPAPA KSSRKNKWKP EEIKSLIQLR GEMNEKFQTV KGRMVLWEEI  360
SGSLLKQGIT RTPAQCKSVW TSLLQKYEES KKDEENMRTW QYFSAMDSFL SCEGEMATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A9e-1213242342560RIBONUCLEASE J
5a0t_B9e-1213242342560RIBONUCLEASE J
5a0v_A9e-1213242342560RIBONUCLEASE J
5a0v_B9e-1213242342560RIBONUCLEASE 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
GenBankBT0093740.0BT009374.1 Triticum aestivum clone wlm96.pk029.g10:fis, full insert mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020191368.10.0uncharacterized protein LOC109777127
SwissprotQ84W561e-120RNJ_ARATH; Ribonuclease J
TrEMBLA0A3B6QH370.0A0A3B6QH37_WHEAT; Uncharacterized protein
TrEMBLA0A446VDT00.0A0A446VDT0_TRITD; Uncharacterized protein
TrEMBLA0A453NXM00.0A0A453NXM0_AEGTS; Uncharacterized protein
STRINGTraes_6DL_88259C187.10.0(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49963542
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.11e-122Trihelix 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. Brenchley R, et al.
    Analysis of the bread wheat genome using whole-genome shotgun sequencing.
    Nature, 2012. 491(7426): p. 705-10
    [PMID:23192148]
  3. 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]