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 Araip.3ND6D
Organism
Arachis ipaensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis
Family Trihelix
Protein Properties Length: 693aa    MW: 77377.4 Da    PI: 8.3723
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araip.3ND6DgenomeNCGR_PGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix63.83.8e-20601681186
     trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                  +W+ +e+++Li++r e+++r++  k +++lWeevs+++++ g++rsp qCk+ w +l ++y+++k+ ++ +     +++py++++e
  Araip.3ND6D 601 KWKPEEIKKLIDMRGELHDRFQVVKGRMALWEEVSRNLSANGISRSPGQCKSLWTSLLQKYEEVKNEKNTK-----KKWPYLEDME 681
                  7***************************************************************9998874.....68*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.103.9E-322156IPR001279Metallo-beta-lactamase
SuperFamilySSF562811.14E-392321IPR001279Metallo-beta-lactamase
PfamPF075216.3E-6264293IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.601.4E-5594660IPR009057Homeodomain-like
PROSITE profilePS500908.304594658IPR017877Myb-like domain
SMARTSM007170.0098598660IPR001005SANT/Myb domain
PfamPF138376.2E-18599683No hitNo description
CDDcd122034.81E-21600665No 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: 693 aa     Download sequence    Send to blast
MELIKKRLKE HGIFVPSRLK VFRTRKKFMA GPFEIDPITV THSIPDCCGL VLRCSDGTIL  60
HTGDWKIDET PLDGKVFDRE ALEELSKEGV TLMMSDSTNV LSPGRTTSES VVADALLRHI  120
SAAKGRVITT QFASNIHRLG SIKAAADLTG RKLVFVGMSL RTYLDAAWKD GKARIDPSTL  180
IKAEDIDAYA PKDLLIVTTG SQAEPRAALN LASYGSSHSF KLTKEDVVLY SAKVIPGNES  240
RVTDMLNRIS EIGSTIVMGK NECLHTSGHG YRGELEEVLR IVKPQHFLPI HGELLFLKEH  300
ELLGKSTGIR HTTVVKNGEM LGVSHLRNRR VLSNGFISLG TENLQLKYSD GDKAFGTSND  360
LLIDERMRIA LDGIIVVSME IFRPQNLDDQ VGNTLKGKIR ITTRCLWLDQ GKLMDSLHKA  420
ANAALSSCPV NCPLAHMERI VSEVLRKMVR KYSGKRPEVI AIAVENPAAV IEDEIKTKLS  480
GKAHVDGIST WRRVLDGHGK ENNSTKMPIR GVEGLASEEY TTTSSGDDDN ISETEDQDEF  540
WKSFVDSSSA EKSIKANNGY VPQKENKPQL KKDSSEESEE EMSGKTSNLE SKYSKSAKRN  600
KWKPEEIKKL IDMRGELHDR FQVVKGRMAL WEEVSRNLSA NGISRSPGQC KSLWTSLLQK  660
YEEVKNEKNT KKKWPYLEDM ERILSENEEL ATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-571465112560RIBONUCLEASE J
5a0t_B1e-571465112560RIBONUCLEASE J
5a0v_A1e-571465112560RIBONUCLEASE J
5a0v_B1e-571465112560RIBONUCLEASE 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
PlantRegMapAraip.3ND6D
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_016190496.10.0uncharacterized protein LOC107631525 isoform X4
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A445ATJ40.0A0A445ATJ4_ARAHY; Uncharacterized protein
STRINGGLYMA04G37020.20.0(Glycine max)
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]