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 MDP0000867772
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family Trihelix
Protein Properties Length: 904aa    MW: 99693.5 Da    PI: 7.6487
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000867772genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix70.92.4e-22811891186
       trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                    rW+ +ev++Li++r +++ r++ +k +++lWee+s+++ + g++rsp qCk+ w +l ++y++ k g+++r     +++pyfd+++
  MDP0000867772 811 RWKPEEVKKLITMRGKLHGRFQVAKGRMALWEEISRNLLADGINRSPGQCKSLWASLVQKYEESKSGKRSR-----KSWPYFDEMD 891
                    8********************************************************************96.....56*******7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.9E-6874324IPR001279Metallo-beta-lactamase
SuperFamilySSF562817.17E-7275489IPR001279Metallo-beta-lactamase
SMARTSM008496.0E-2687284IPR001279Metallo-beta-lactamase
PfamPF127061.0E-1099234IPR001279Metallo-beta-lactamase
PfamPF075211.6E-5430461IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.211804868IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.601.3E-5805870IPR009057Homeodomain-like
PfamPF138373.5E-18809891No hitNo description
CDDcd122033.55E-21810875No 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: 904 aa     Download sequence    Send to blast
MAALGVLSPC PYSLLWRPKA AGRCVSCSVG SSTAAGTHGS NVRRSGRMEG PRKSMEDSVK  60
RKMEQFYEGK EGPPIRVLPI GGLGEIGMNC MLVGNYDRYI LIDAGVMFPD FDELGVQKII  120
PDTTFIKKWS HKIEAIVITH GHEDHIGALP WVIPALDLDT PIFASSFTME LIKKRLKEHG  180
IFVPSRLRTF RTKRKFTAGP FEIEPIRVTH SIPDCCGLVL RCSDGTILHT GDWKIDESPL  240
DGRGFDREAL EELSKEGVTL MMSDSTNVLS PGRTTSESSV ADALLRHISA AKGRVITTQF  300
ASNIHRLGSV KAAADFTGRK LVFVGMSLRT YLDAAWKDGK APIDPSSLVK VEDIDSYAPK  360
DLLIVTTGSQ AEPRAALNLA SFGSSHSVKL TKEDVILYSA KVIPGNESRV MKMLNRISDL  420
GSTIVMGKNE GLHTSGHGYR GELEEVLQIV KPQHFLPIHG ELLFLKEHEL LGKSTGIHHT  480
TVIKNGEMLG VXHLRNRRVL SSGFTMLGKE NVQLKFSDGD KAFGTSSELC VDERLRIALD  540
GIIVVSMEIL RPENVNGLAE NSIKGKIKIT TRCLWLDKGK LIDALYKAAH AALSSCPINC  600
PLAHMERTVS EVLRKLVRKY SGKRPDVIAI AMENPAVVLA DEVSARLSAK SHVGSEMSQL  660
RKAYDRHQNK GPSTRTQADD GKTQTYFQSQ STRTQADGDK DNTLQSILQQ DTEALTLSMF  720
YYFISSESEL EDDGIQVEGL LPEEDSATSS SKSEELSSDS EDFWKSLVTL STGDKSAQDE  780
NGLVAEQEHP QKDGPENSEI PNPSKPVKRN RWKPEEVKKL ITMRGKLHGR FQVAKGRMAL  840
WEEISRNLLA DGINRSPGQC KSLWASLVQK YEESKSGKRS RKSWPYFDEM DGALSDSEEL  900
ATK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A6e-877563319560RIBONUCLEASE J
5a0t_B6e-877563319560RIBONUCLEASE J
5a0v_A6e-877563319560RIBONUCLEASE J
5a0v_B6e-877563319560RIBONUCLEASE J
Search in ModeBase
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008374252.20.0ribonuclease J-like isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A498JJX20.0A0A498JJX2_MALDO; Uncharacterized protein
STRINGXP_008374252.10.0(Malus domestica)
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]