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 Kalax.1254s0008.2.p
Organism
Kalanchoe marnieriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe
Family Trihelix
Protein Properties Length: 857aa    MW: 94943 Da    PI: 8.6153
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Kalax.1254s0008.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix69.66e-22768848186
             trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                          rW+ +e++ Li++r e++e+++ +k++++lWee+s+++ ++gf r+p qCk+ w +l ++y++ k g++++     +++pyfd+++
  Kalax.1254s0008.2.p 768 RWKTEEIKMLIKMRGELHEQFQVAKRRMALWEEISANLVSGGFDRTPGQCKSLWTSLVQKYEESKSGKRSK-----TSWPYFDDVD 848
                          8********************************************************************85.....36*****987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.3E-6776326IPR001279Metallo-beta-lactamase
SuperFamilySSF562812.46E-7377491IPR001279Metallo-beta-lactamase
SMARTSM008492.6E-2689286IPR001279Metallo-beta-lactamase
PfamPF127062.3E-10101236IPR001279Metallo-beta-lactamase
PfamPF075216.8E-8430468IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500908.293761825IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.601.6E-5762827IPR009057Homeodomain-like
PfamPF138379.8E-18766849No hitNo description
CDDcd122037.07E-21767832No 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: 857 aa     Download sequence    Send to blast
MATFAALSMC PCSLPCRPRI GRRSIWCSVV SSPALGTQGS KAPRKRSPRL EGVGKSMEDS  60
VQRKMEQFYE GANGPPIRVL PIGGLGEIGM NCMLIGNYDR YILIDAGVMF PDFDELGVQK  120
IIPDTTFIKR WSHKIEAVII THGHEDHIGA LPWVIPALDP NTPIFASSFT MELIKKRLKE  180
FGIFVPSRLK VFRTKSKFKA GPFEIEPIRV THSIPDCSGL VLRCADGTIL HTGDWKIDES  240
PLDGKAFDRE ALEQLSKEGV TLMMSDSTNV LSPGRTTSES NVKTALMRHI SATKGRVITT  300
QFASNIHRLG SVKAAADLTG RKLVFVGMSL RTYLDAAWKD GKAPIDPSTL VKAEDIDAFA  360
PKDLLIVTTG SQGEPRAALN LASYGSSHSL KLTKEDVILY SAKVIPGNES RVMKMLNRIS  420
DIGSTIVMGR NEGLHTSGHA YREELEEVLR IVKPQHFLPI HGELLFLREH EMLGKSTGIH  480
HTTVIKNGEM LGVSHLRNRR VLSNGYISLG KENLQLMYSD GDKAFGTSTD LCIDERLRIA  540
SDGIIVISME IMRPQNGAID RSIKGKIKIT TRCLWLDKGK LLDALYKAAH AALSSCPVNC  600
PLVHMERTVS EVLRKMVRKY SSKRPEVIAV AIENPSAVLV DEISSKLSGK SNFGFKISGA  660
RDFVDENPNK SWSNPRQEAD GEEVRLAEKV LQSELRDVTA RVERLLPEEE LATSSSLVEE  720
IIPSESAKAD QFWKAYVTSP SEEAGTSEEE SESSDTEIKS SKSVKRNRWK TEEIKMLIKM  780
RGELHEQFQV AKRRMALWEE ISANLVSGGF DRTPGQCKSL WTSLVQKYEE SKSGKRSKTS  840
WPYFDDVDAV LSNATN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A3e-887763319560RIBONUCLEASE J
5a0t_B3e-887763319560RIBONUCLEASE J
5a0v_A3e-887763319560RIBONUCLEASE J
5a0v_B3e-887763319560RIBONUCLEASE 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}.
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_028058464.10.0ribonuclease J-like isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLF6GST50.0F6GST5_VITVI; Uncharacterized protein
STRINGVIT_17s0000g01640.t010.0(Vitis vinifera)
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]