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 Carubv10017213m
Common NameCARUB_v10017213mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 458aa    MW: 51071.8 Da    PI: 9.4113
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10017213mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2193.7e-067193123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     + C+ C+k F+r  nL+ H r H
  Carubv10017213m 71 FICEVCNKGFKRDQNLQLHRRGH 93
                     89*******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.05E-77093No hitNo description
Gene3DG3DSA:3.30.160.603.5E-67093IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8877193IPR007087Zinc finger, C2H2
PfamPF121712.0E-57193IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0137193IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807393IPR007087Zinc finger, C2H2
SMARTSM00355110113143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.9E-4136169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.05E-7143168No hitNo description
SMARTSM00355180148168IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 458 aa     Download sequence    Send to blast
MMMPDDHHHH HLSFPSYVLH QEHITPNDPN PNPNATSSNS AKRKRNLPGN PDPDAEVIAL  60
SPNSLMATNR FICEVCNKGF KRDQNLQLHR RGHNLPWKLK QRTNKELVKK KVYICPEKTC  120
VHHDPARALG DLTGIKKHFS RKHGEKKWKC EKCSKKYAVM SDWKAHSKIC GTREYRCDCG  180
TLFSRKDSFI THRAFCDALA EESARFVSVP PAAAPATPGY LNNAPDAEIN LGNINPNHQH  240
GQLNTTSSQL DHQQGFNFNR QAFLGQTFTN QLPTTQTNVF ASPSTRSPSD SLQNLWQLQG  300
QSSHQWLLNE NNNNNILQRG ISKNEEEHEI KNVVTSGSLF SSESHNNSNN YNQNGGQVTS  360
MSATALLQKA AQMGSKRSSS SSNNSKAFGL MSTTSIFNNK QTENIKTKEV DEGGFTRDFL  420
GVGSQHRTWP LMMVNHNIPD SSPPANADGT PTADRNQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-36144209368Zinc finger protein JACKDAW
5b3h_F9e-36144209368Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10017213m
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_006291100.10.0protein indeterminate-domain 9
SwissprotQ944L30.0IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLR0HJJ20.0R0HJJ2_9BRAS; Uncharacterized protein
STRINGXP_006291100.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.10.0C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]