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 29780.m001362
Common NameLOC8283306, RCOM_0775740
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C2H2
Protein Properties Length: 589aa    MW: 63912.6 Da    PI: 9.3815
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29780.m001362genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23e-057294123
                   EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                   + C+ C+k F r  nL+ H r H
  29780.m001362 72 FICEVCNKGFQREQNLQLHRRGH 94
                   89*******************88 PP
2zf-C2H213.10.00028148170123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    +kC++C+k++  +s+ k H +t+
  29780.m001362 148 WKCEKCSKRYAVQSDWKAHSKTC 170
                    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-67194IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.17E-77194No hitNo description
PfamPF121712.9E-57294IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.997294IPR007087Zinc finger, C2H2
SMARTSM003550.00527294IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807494IPR007087Zinc finger, C2H2
SMARTSM00355130113143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.1E-5136169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.17E-7143168No hitNo description
SMARTSM00355130148168IPR015880Zinc 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: 589 aa     Download sequence    Send to blast
MATSSSSVPF FGIRDDEQNQ MKQQHSSTPT SSSAQAQAPA AQKKKRNQPG MPNPDAEVIA  60
LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKTTKEVKR KVYLCPEPTC  120
VHHDPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG  180
TLFSRRDSFI THRAFCDALA QESARNPPTN LNTIGSHLYG GSNMSLGLSQ VNTQISSMQD  240
QSSDILRLGG GSRTGQFDHL LPSSMGGSVS FRPSPPQPMP SPAFFMQEPN QNYHDEHQAQ  300
QGLLQNKPFH HGLMQFAELH NTTNTNPPAS NIFNLSFLSN SSTTSSITNS NNANNSNNSL  360
LMSNQFSNQN GASGGGDGST MFSNHIMGDH HQMNSGVPSL FTSSVQKDNT VPHMSATALL  420
QKAAQMGSTS STYSASLLRS FGSSSSSTGM KSAAANFGEI FSENDQNNLH DLMNSFAATG  480
NSSIFGHGQE NPYGTSGGNL EEAKMHQGLN ASIGGSDRLT RDFLGVGQVV RSMSGGFSQR  540
EKQRQPPQQQ QQQQGIDMGG SSLDSERNIA AAAAAAPTSQ SFGGSGNFQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-34144205364Zinc finger protein JACKDAW
5b3h_F4e-34144205364Zinc finger protein JACKDAW
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap29780.m001362
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2084941e-158AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002521878.10.0protein indeterminate-domain 5, chloroplastic
SwissprotQ9ZUL31e-157IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLB9S7A90.0B9S7A9_RICCO; Nucleic acid binding protein, putative
STRINGXP_002521878.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15363397
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.11e-115indeterminate(ID)-domain 4
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]