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 Manes.14G052700.5.p
Organism
Manihot esculenta
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot
Family Trihelix
Protein Properties Length: 729aa    MW: 80999.8 Da    PI: 8.6568
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Manes.14G052700.5.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix65.11.5e-20636716186
             trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                          +W+ +ev+ Li++r ++++r+   k +++lWee+s+++ ++gf+r+p qCk+ w +l ++y++ +  ek+r     + +pyf++++
  Manes.14G052700.5.p 636 KWKPEEVKRLIKMRGDLHDRFHVVKGRMALWEEISENLIAEGFNRTPGQCKSLWASLVQKYEENASDEKSR-----KVWPYFEDMD 716
                          7**************************************************************99999986.....45*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.2E-379180IPR001279Metallo-beta-lactamase
SuperFamilySSF562814.53E-4415345IPR001279Metallo-beta-lactamase
PfamPF075216.3E-6286317IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.603.5E-6628695IPR009057Homeodomain-like
PROSITE profilePS500908.397629693IPR017877Myb-like domain
PfamPF138376.8E-18634718No hitNo description
CDDcd122034.01E-20635698No 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: 729 aa     Download sequence    Send to blast
MDTKITLVIP ALDSRTPIYA SSFTMELIKK RLKENGIFVY SRLKVFRTRK KFIAGPFEVE  60
PIRVTHSIPD CCGLVLRCDD GTILHTGDWK IDESPLDGKV FDREALEELS KEGVTLMMSD  120
STNVLSPGRT ISESVVADAL MRRISAAKGR VITTQFASNI HRLGSVKAAA DLTGRKLVFV  180
GMSLRTYLDA AWKDGKAPID PSTLVKVEDI DAYAPKDLLI VTTGSQAEPR AALNLASYGS  240
SHSFKLSKED LILYSAKVIP GNESRVMKML NRISDIGSTI IMGKNELLHT SGHGYRGELE  300
EILRIVKPQH FLPIHGELLF LKEHELLGKS TGIGHTTVIK NGEMLGVSHL RNRRVISNGF  360
ISLGKENLQL MYSDGDKAFG TSAELCVDER LRIATDGIIV VSMEILRPQN SESLIENTIK  420
GKIRITTRCL WLDKGKLLDA LHKAAHAALS SCPVNCPLSH MEKMVSEVLR KMVRKYSGKR  480
PEVIAIAMEN PAGVLSDEIK TRLSGNSHIG VGISSLKKVV DGYPKKNRSN KTQEESNGYM  540
HLDNTSQRNL EVGRLPVNEE TTTSTSSLAD SLPSDSEDQD DFWKSFVSPS SPVDNLVPQQ  600
ENVNELKEDG SMSSDDNSST VQNSQSKPSK RVKRNKWKPE EVKRLIKMRG DLHDRFHVVK  660
GRMALWEEIS ENLIAEGFNR TPGQCKSLWA SLVQKYEENA SDEKSRKVWP YFEDMDKILS  720
GFEATSTK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-6117489104560RIBONUCLEASE J
5a0t_B3e-6117489104560RIBONUCLEASE J
5a0v_A3e-6117489104560RIBONUCLEASE J
5a0v_B3e-6117489104560RIBONUCLEASE 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
PlantRegMapManes.14G052700.5.p
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_021591758.10.0uncharacterized protein LOC110599606 isoform X5
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A2C9UKT70.0A0A2C9UKT7_MANES; Uncharacterized protein
STRINGcassava4.1_001533m0.0(Manihot esculenta)
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]