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 GSBRNA2T00011525001
Common NameGSBRNA2T00011525001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 454aa    MW: 50813 Da    PI: 9.9235
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00011525001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.82.1e-067193123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         + C++C+k F+r  nL+ H r H
  GSBRNA2T00011525001 71 FICEICNKGFKRDQNLQLHRRGH 93
                         89*******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.605.3E-67093IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.89E-87093No hitNo description
PROSITE profilePS5015710.8667193IPR007087Zinc finger, C2H2
PfamPF121711.7E-57193IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0117193IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807393IPR007087Zinc finger, C2H2
SMARTSM0035597113143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.5E-4136169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.89E-8143168No hitNo description
SMARTSM00355190148168IPR015880Zinc 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: 454 aa     Download sequence    Send to blast
MIIPDDHHHL SFPSYVLHQE HITPNPNPNP NPTASNSNKR KRNLPGNPGM YNPDAEVIAL  60
SPNSLMTTNR FICEICNKGF KRDQNLQLHR RGHNLPWKLK QRTDKEQVKK KVYICPEKTC  120
VHHDPGRALG DLTGIKKHFS RKHGEKKWKC DKCSKKYAVV SDWKAHSKIC GTREYKCDCG  180
TLFSRKDSFI THRAFCDALA EESARFASVP PAAAAYLNNS SDAEVNLGNI KPNHQQRLLD  240
LTSSQLDRHG FNVNRNNING FMGQSSTNQL PLAANVFASS SSPSPHSASA LLQNLWQLQG  300
QSYQQWLLNK NNNNIIQSGM PNNQEDHDTI RRELVINGSS FSSEARTSYN QNGGQEIASM  360
SATTLLQMAA QIGSKRSSSS SNNGMAFGLV TSSIFNNKEM ENKIKTKEFD ERGFTRDFLG  420
VGSQNRHRPI LMVNHNLPTT NDGTPTTYMN HKT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-35144209368Zinc finger protein JACKDAW
5b3h_F1e-35144209368Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, especially in vascular initials, cortex, endodermis, and quiescent center (QC). {ECO:0000269|PubMed:25829440}.
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
PlantRegMapGSBRNA2T00011525001
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_009150084.10.0PREDICTED: protein indeterminate-domain 9 isoform X1
SwissprotQ944L30.0IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A078IV730.0A0A078IV73_BRANA; BnaA06g38780D protein
STRINGBra038293.1-P0.0(Brassica rapa)
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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]