PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bv5_110480_qpat.t1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta
Family Trihelix
Protein Properties Length: 886aa    MW: 98303.3 Da    PI: 8.0315
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bv5_110480_qpat.t1genomeTBVRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix643.2e-20794874186
            trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                         +W+ +ev++Li +r e+++r++  k +++lWee+s+ +   gf+r+p qCk+ w +l ++y++ k  ek++     +++p++++++
  Bv5_110480_qpat.t1 794 KWKPEEVKKLIMLRGELHDRFQVVKGRMALWEEISSSLLNDGFNRTPGQCKSLWASLVQKYEESKSDEKSK-----KSWPHYQEMD 874
                         7********************************************************************85.....56*******8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.1E-6776326IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.38E-7277491IPR001279Metallo-beta-lactamase
SMARTSM008493.1E-2489286IPR001279Metallo-beta-lactamase
PfamPF127061.9E-10101236IPR001279Metallo-beta-lactamase
PfamPF075211.1E-7430463IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.991787851IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.6E-5789853IPR009057Homeodomain-like
PfamPF138373.9E-19792876No hitNo description
CDDcd122036.18E-22793854No 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: 886 aa     Download sequence    Send to blast
MAAFTALSIC PCSLFYRPNH VKRYISCSVG PSRSLGTNAT KVPRKRPGRL EGASKSMEDS  60
VKRKMEQFYE GSTGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGIMF PDYDEFGVQK  120
IIPDTTFIKR WSHKIEAVII THGHEDHIGA LPWVIRALDP NTPIFSSSFT MELIKKRLKE  180
FGIFVPSRLK VFRTKRRFTA GPFEIEPVRV THSIPDCCGL VMRCSDGTIF HTGDWKIDET  240
PVDGKAFDRV ALEELSKEGV TLMMSDSTNI MSPGRTISES VVADALLRHI SAAKGRVITT  300
QFASNIHRLG SVKAAADATG RKLVFVGMSL RTYLDAAWKD GKAPIDPSTL VKVEDIDAYA  360
PKDLLIVTTG SQAEPRAALN LASYGSSHSL KLSKEDVILY SAKVIPGNES RCMKMFNRIS  420
ELGSTLVMGR NEMLHTSGHA YREELAEVLK IVKPQHFLPI HGELLFLKEH ELLGKSTGIQ  480
HTTVIKNGEM LGVSHLMNRR VLSNGFVSLG KENLQLMYND GDKAFGTSAE LCIDERMKIA  540
TDGIIVISME VLRPHAVEGY TENTLKGKIR ITTRCLWLDK GKLLDALYKA AHAGLSSCPV  600
NCPLSHMERT VSELLRKVVR KYSGKRPEVI AVATENAAAV ISEEVNGRLS GKSHSGFGLS  660
ALKKAFDGHH QRKKSGKVQD EEDDGHLSQD SSSMQLESED NSEFDRLLEK VDKAGSASDI  720
EESSSAESEN SDGIWKSFTG LSTLPTGKQE ERGEISTLLE EYADRSRGGE VNKDESDEES  780
KHSTKRSKST TRNKWKPEEV KKLIMLRGEL HDRFQVVKGR MALWEEISSS LLNDGFNRTP  840
GQCKSLWASL VQKYEESKSD EKSKKSWPHY QEMDTILSNL GDVVNS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A7e-867763519560RIBONUCLEASE J
5a0t_B7e-867763519560RIBONUCLEASE J
5a0v_A7e-867763519560RIBONUCLEASE J
5a0v_B7e-867763519560RIBONUCLEASE 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010677898.10.0PREDICTED: uncharacterized protein LOC104893494 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A0K9QP060.0A0A0K9QP06_SPIOL; Uncharacterized protein
STRINGXP_010677898.10.0(Beta vulgaris)
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]