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 XP_013622797.1
Organism
Brassica oleracea
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: 428aa    MW: 47792.6 Da    PI: 9.6328
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013622797.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.92e-066587123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    + C++C+k F+r  nL+ H r H
  XP_013622797.1 65 FICEICNKGFKRDQNLQLHRRGH 87
                    89*******************88 PP
2zf-C2H210.80.0016172190523
                     TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                     dCg+ Fsrk+++ +H   +
  XP_013622797.1 172 DCGTIFSRKDSFITHRAFC 190
                     9**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.9E-66487IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.81E-86487No hitNo description
PROSITE profilePS5015710.8666587IPR007087Zinc finger, C2H2
PfamPF121711.6E-56587IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0116587IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806787IPR007087Zinc finger, C2H2
SMARTSM0035597107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.7E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.81E-8137162No hitNo description
SMARTSM00355190142162IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 428 aa     Download sequence    Send to blast
MIIPDDPHLL SFPSYVLHQE HITPNPNPNP NPTASKSNKR KRNLPDPDAE VIALSPNSLM  60
TTNRFICEIC NKGFKRDQNL QLHRRGHNLP WKLKQRTDKE QVKKKVYICP EKTCVHHDPG  120
RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVVSDWKAH SKICGTREYR CDCGTIFSRK  180
DSFITHRAFC DALAEESARF ASVPPAAAAY LNNSSDAEVN LGNIKPNHQQ RLLDCTSSQL  240
DRHGFNVNRN NINGFTGQSS TNQLPLAANV FASSSSPSPH SASALLQNLW QLQGQSYQQL  300
LLNKNNNNII QNGMPNNQED HDTIKRELVI NGSLFSSEAR TSYNQNGGQE IASMSATALL  360
QMAAQMGSKR SSSSSNNGMA FGLMTSSIFN NKEMENKIKT KEVDERGFTR DFLGEGSQNR  420
PANIDGQP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-35138203368Zinc finger protein JACKDAW
5b3h_F4e-35138203368Zinc 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
PlantRegMapXP_013622797.1
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_013622797.10.0PREDICTED: protein indeterminate-domain 9 isoform X2
SwissprotQ944L30.0IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A0D3BHB40.0A0A0D3BHB4_BRAOL; Uncharacterized protein
STRINGBo3g129830.10.0(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.11e-168C2H2-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]