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 MDP0000313526
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: 893aa    MW: 98752.3 Da    PI: 8.0537
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000313526genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix67.13.7e-21801881186
       trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                    +W+ +ev++Li++r ++ +r++  k +++lWee+s+++ + g++rsp qCk+ w +l ++y++ k g+++r     +++pyf++++
  MDP0000313526 801 KWKTDEVQKLITMRGKLRSRFQVVKGRMALWEEISRNLLADGINRSPGQCKSLWASLVQKYEESKSGKRSR-----KSWPYFEEMD 881
                    7********************************************************************96.....56*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.103.8E-6774327IPR001279Metallo-beta-lactamase
SuperFamilySSF562819.23E-7175492IPR001279Metallo-beta-lactamase
SMARTSM008493.8E-2687287IPR001279Metallo-beta-lactamase
PfamPF127064.4E-11100237IPR001279Metallo-beta-lactamase
PfamPF075211.6E-5433464IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.601.2E-4793860IPR009057Homeodomain-like
PROSITE profilePS500908.084794858IPR017877Myb-like domain
PfamPF138372.6E-18799881No hitNo description
CDDcd122032.50E-19800865No 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: 893 aa     Download sequence    Send to blast
MAALGALSPC PYSLLWRPKT SNRCVSXSVG SSTATGTRRS NVRRSGRMEG PRKSMEDSVQ  60
RKMEQFYEGR EGPPIRVLPI GGLGEIGMNC MLVGNYDRYI LIDAGVMFPE YVNFDELGVQ  120
KIIPDTTFIK KWSHKIEAIV ITHGHEDHIG ALPWVIPALD PNTPIFASSF TMELIKKRLK  180
EHGIFVPSRL RTFRTKRKFT AGPFEIEPVR VTHSIPDCCG LVLRCSDGTI LHTGDWKIDE  240
SPLDGRGFDR EALEELSKEG VTLMMSDSTN VLSPGRTTSE SSVADALLKH ISAAKGRVIT  300
TQFASNIHRL GSVKAAADFT GRKLVFVGMS LRTYLDAAWK DGKAPIDPSS LVKVEDIDSY  360
APKDLLIVTT GSQAEPRAAL NLASFGSSHS VKLNKEDIIL YSAKVIPGNE SRVMKMLNRI  420
SDLGSTIVMG KNEGLHTSGH GYRGELEEVL QIVKPQHFLP IHGELLFLKE HELLGRSTGI  480
HHTTVIKNGE MLGVSHLXNR RVLSNGFTLL GKENLQLKFS DGDKAFGTSS DLCVDERLRI  540
ALDGIIVVSM EVLRPQNVNG STENSIKGKI KITTRCLWLD KGKLIDALYK AAHSALSSCP  600
ISCPLPHMER TVSEVLRKLV RKYSGKRPDV IAIAMENPAA VHADEVSARL SGKSYVGSEV  660
SQLRKVYDQH QIKSPSTRTQ ADDCKAKTHF PSQSTTTQAD EGKDNTLQSF SQQDTEESVL  720
EDDGIEVEGL LPEEDSATSS SKPEKLSSDS EDFLNAMVRL STGDKSVEDE NGLVAEQENP  780
QKDGPESSEI PNLSKPVKRN KWKTDEVQKL ITMRGKLRSR FQVVKGRMAL WEEISRNLLA  840
DGINRSPGQC KSLWASLVQK YEESKSGKRS RKSWPYFEEM DXAXSDSXEL ATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-877563619560RIBONUCLEASE J
5a0t_B3e-877563619560RIBONUCLEASE J
5a0v_A3e-877563619560RIBONUCLEASE J
5a0v_B3e-877563619560RIBONUCLEASE 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_008392826.20.0ribonuclease J-like isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A498I1Y30.0A0A498I1Y3_MALDO; Uncharacterized protein
STRINGXP_008392826.10.0(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]