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_013598337.1
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: 591aa    MW: 63302.5 Da    PI: 9.9132
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013598337.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23.1e-0584106123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     + C+ C+k F r  nL+ H r H
  XP_013598337.1  84 FICEVCNKGFQREQNLQLHRRGH 106
                     89*******************88 PP
2zf-C2H213.10.00028160182123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     +kC++C+k++  +s+ k H +t+
  XP_013598337.1 160 WKCEKCSKRYAVQSDWKAHSKTC 182
                     58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.6E-683106IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.1E-783106No hitNo description
PfamPF121712.9E-584106IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.005284106IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9984106IPR007087Zinc finger, C2H2
PROSITE patternPS00028086106IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-5148181IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.1E-7155180No hitNo description
SMARTSM00355130160180IPR015880Zinc 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: 591 aa     Download sequence    Send to blast
MAASSSSAAS FFGVRQDEQS HLLPPNSSAA VPPPPPPPHH RPPQPQQPLE APPQKKKRNQ  60
PRTPNSDAEV IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLKQKSTKEV  120
KRKVYLCPEP SRVHHDPSRA LGDLTGIKKH YYRKHGEKKW KCEKCSKRYA VQSDWKAHSK  180
TCGTKEYRCD CGTLFSRRDS FITHRAFCDA LAQESARHPT SLTSLPSHHF PYGQNTNNSN  240
NNTSSMILGL PHIGNPQNLD HQSGDVLRLG SGGGGGGGAS RSSSDLIAAN ASGYFMQEQN  300
PSFHDQQDHH QHQQQGFLAA SNNIKPSPMN FQQSLMQFSN DNHNSPSSNL FNLSFLSGNN  360
GIASGTSNPN AAAVPSGNHM ISNHFGGENA VGGSGGGSTG LFPNNLMSSA GRINSGAVPS  420
LYSSSMQNPN SASHMSATAL LQKAAQMGSS TSSSNNNTNN ASSILRSFGS GMYGENESNL  480
HDLMNSFSNP GATGNSANGV DSQFGTYGGV NKGLSADKQN MTRDFLGVGQ IVRSMSGSAG  540
FQQQQQQQHG NGGRERVGSS SDSADRNSMN VNPGGGGSTS SPPYGIHHAS F
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-34156217364Zinc finger protein JACKDAW
5b3h_F4e-34156217364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bol.130710.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013598337.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6214950.0AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBankAY0561740.0AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBankAY0813140.0AY081314.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBankBT0012150.0BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013598337.10.0PREDICTED: protein indeterminate-domain 5, chloroplastic
SwissprotQ9ZUL30.0IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A0D3DAB00.0A0A0D3DAB0_BRAOL; Uncharacterized protein
STRINGBo7g080180.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.10.0indeterminate(ID)-domain 5
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]