PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013617657.1
Organism
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: 458aa    MW: 50977.1 Da    PI: 9.4057
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013617657.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2193.7e-066890123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    + C+ C+k F+r  nL+ H r H
  XP_013617657.1 68 FICEVCNKGFKRDQNLQLHRRGH 90
                    89*******************88 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576678.03E-86790No hitNo description
Gene3DG3DSA:3.30.160.603.5E-66790IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0136890IPR015880Zinc finger, C2H2-like
PfamPF121712.0E-56890IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.8876890IPR007087Zinc finger, C2H2
PROSITE patternPS0002807090IPR007087Zinc finger, C2H2
SMARTSM00355140110140IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.4E-4133166IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.03E-8140165No hitNo description
SMARTSM00355200145165IPR015880Zinc 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
MMIPDDHHHL SFPSYVLHQE QITPNLNPNP NPTSSNSNKR KRNLPGNPDP DAEVIALSPN  60
SLMATNRFIC EVCNKGFKRD QNLQLHRRGH NLPWKLKQRT NKEQVKKKVY ICPEKACVHH  120
DPARALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVMSDW KAHSKICGTR EYRCDCGTLF  180
SRKDSFITHR AFCDALAEES SRFASVPPAA TAAPFLNNSP DAEVNHGNVK LNHQQPGINI  240
NRHNINGFMG QAFANQVSLP ANVFASSSLP SPHSESDSLQ NLWHLQGQSS HQWLLNENNN  300
RNILQRGISN NQEDQDTKKG IITSDYLFSS DSSTNYDQSG GQVIPSMSAT ALLQKAAQMG  360
SKRSESSSNN STAVGLMTSS IFNNKHTEND IKTKEVDERG FTRDFLGVGS QNRPWPLLMV  420
NHSLPNMTQP ATTDVIPTTG TATAGTATAE MNHKTQTM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-35141206368Zinc finger protein JACKDAW
5b3h_F4e-35141206368Zinc 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_013617657.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4283020.0AF428302.1 Arabidopsis thaliana AT3g45260/F18N11_20 mRNA, complete cds.
GenBankAJ6214930.0AJ621493.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 1 (idz1 gene).
GenBankAY1439360.0AY143936.1 Arabidopsis thaliana At3g45260/F18N11_20 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013617657.10.0PREDICTED: protein indeterminate-domain 9-like
RefseqXP_013672577.10.0protein indeterminate-domain 9-like
SwissprotQ944L30.0IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A0D3A8N00.0A0A0D3A8N0_BRAOL; Uncharacterized protein
STRINGBo1g065210.10.0(Brassica oleracea)
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]