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 Do012990.1
Organism
Dichanthelium oligosanthes
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Dichantheliinae; Dichanthelium
Family Trihelix
Protein Properties Length: 878aa    MW: 97404.3 Da    PI: 8.9057
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Do012990.1genomeDichanView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix70.23.8e-22786866186
    trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                 +W+ +e++ Li++r em+e++++ k ++ lWee+s  m+ +g++r+p qCk+ w +l ++y++ k+ e++      +t+pyf++++
  Do012990.1 786 KWKPEEIKSLIQMRGEMNEKFQTVKGRMVLWEEISGSMMNQGISRTPAQCKSLWTSLVQKYEESKRDEES-----MKTWPYFSSMD 866
                 7*****************************************************************9998.....579*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.3E-3482204IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.12E-5183189IPR001279Metallo-beta-lactamase
SMARTSM008495.6E-1095342IPR001279Metallo-beta-lactamase
PfamPF007533.8E-597185IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.12E-51218505IPR001279Metallo-beta-lactamase
Gene3DG3DSA:3.60.15.102.3E-34247305IPR001279Metallo-beta-lactamase
PfamPF075212.6E-7448477IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.712779843IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.4E-5782845IPR009057Homeodomain-like
CDDcd122031.46E-22785850No hitNo description
PfamPF138375.3E-18785868No 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: 878 aa     Download sequence    Send to blast
MVALASLSSL CPCGLARRRA ASASASVSIS CCAVATPSSG KGPQESRTPR KRLRRTEGAT  60
KSLEDSVKRK MEQFYEGVDG PPLRVLPIGG LGEIGMNCML VGNYDRYILI DAGVMFPEYV  120
FQTLSCSCFH SSSVPIIFDV FLIYDEFGVQ KIIPDTTFIK KWSHKIEAVI ITHGHEDHIG  180
ALPWVNNSPV TQNTPFQFIM NSTCLLGCHP STGFKHTDFC VIFHHGDLQD FEMHLFIIEQ  240
LIKKRLKEFG IFLSSRLKVL RIKKRFQAGP FEVEPIRVTH SIPDCCGLVL RCGDGIIFHT  300
GDWKVKAKGR VITTQFASNI HRIGSIKAAA DLTGRKMVFV GMSLRTYLEA AFKDGKAPLD  360
PSTLVKVEDM DAYAPKDLLI VTTGSQGEPR AALNLASYGG SHALKLSKED VLLYSAKVIP  420
GNETRVMKMM NRLTDLGPKI IMGKDAGLHT SGHAYRDELE EVLRIVKPQH FLPVHGELLF  480
LKEHELLGRS TGIKHTTVIK NGEMLGVSHL RNRRVLSNGF VSLGKEDFQL MYSDGDKAFG  540
TSTDLCIDER LRIASDGIIF VSMEIFRPQK EHASAQSGLK GKFKITTRCL WLDNGRLLDA  600
LYKAAHAALS SCPLNCPLSH MERMVTEILR KMVRKYSGKR PDVIAVAMEN TTAAFSEHLE  660
AKSIGNFGPS STTSHLSRSP ARSLEGSYKT HPDNPDVEAE ETLPEAVSTT PDDATTSSNG  720
EAFFSSDLHQ PKTLEHFWES FKSPTAVKIA RIVNGGNKQN PGKIGIMGKD STQSAPAPVK  780
SSKKNKWKPE EIKSLIQMRG EMNEKFQTVK GRMVLWEEIS GSMMNQGISR TPAQCKSLWT  840
SLVQKYEESK RDEESMKTWP YFSSMDRILS CEGEMATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3bk1_A2e-488365017562Metal dependent hydrolase
3bk2_A2e-488365017562Metal dependent hydrolase
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
PlantRegMapDo012990.1
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
GenBankBT0181950.0BT018195.1 Zea mays clone EL01N0559C12.c mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004952679.10.0uncharacterized protein LOC101761263 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A1E5W3420.0A0A1E5W342_9POAL; Ribonuclease J
STRINGSi016284m0.0(Setaria italica)
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
AT5G63420.10.0Trihelix 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]