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 Rsa1.0_02813.1_g00002.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 534aa    MW: 57850.2 Da    PI: 9.0784
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02813.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.88.2e-05105127123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              + C  C+k F r  nL+ H r H
  Rsa1.0_02813.1_g00002.1 105 FICDVCKKGFQREQNLQLHRRGH 127
                              89*******************88 PP
2zf-C2H212.60.0004181203123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              +kC +C+k++  +s+ k H +t+
  Rsa1.0_02813.1_g00002.1 181 WKCDKCSKRYAVQSDWKAHSKTC 203
                              58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.5E-7104127No hitNo description
PfamPF139121.1E-4104127IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.6E-5104127IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.014105127IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.616105127IPR007087Zinc finger, C2H2
PROSITE patternPS000280107127IPR007087Zinc finger, C2H2
SMARTSM0035560146176IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.3E-5168202IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.5E-7176201No hitNo description
SMARTSM00355140181201IPR015880Zinc 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: 534 aa     Download sequence    Send to blast
MSSSSYNTSV VPSSPSTQPF FITGSGAGDN AFDRKDTFMS MIQQPNSSAP QPKKRRNQPG  60
NPSKEKKEDY IILPALDQIT ICVSVYPDAE VVALSPTTLM ATNRFICDVC KKGFQREQNL  120
QLHRRGHNLP WKLKQKSTKE VKRKVYICPE PTCVHHDPSR ALGDLTGVKK HYYRKHGEKK  180
WKCDKCSKRY AVQSDWKAHS KTCGTKEYRC DCGTIFSRRD SYITHRAFCD ALIQETARNP  240
TMTLTSITAA SSGAGFGGFH GRLEGGNALS HHHLSDHTNS GFSSFSGYNL NFPSSGNSRD  300
FAPQTSNPNF LIQYSSSQGI VTVPNNNNNN NDQSFMNQQG LIHFDPVNNI NLKSSTTNNS  360
LFNIGFFQEN TKNSETTLPS LYSTDALVHH GEGSLNVNSN VSATALLQKA TQLGSITSND  420
PSALFRGLGS SSNSSSVVVN DFGGGHIMGN DNNGNLQGLM NSVVAVNGGG TGGSGGNIFD  480
VDFGNNNGNM SGSDNLTLDF LGVGGMVRNV NRGGAGRGRV RGDVSLIGEL KFPE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-33177243369Zinc finger protein JACKDAW
5b3h_F2e-33177243369Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02813.1_g00002.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013599228.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599229.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599230.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599231.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599232.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599233.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013599234.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013736158.10.0protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013736159.10.0protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013736160.10.0protein indeterminate-domain 4, chloroplastic-like
RefseqXP_013736161.10.0protein indeterminate-domain 4, chloroplastic-like
RefseqXP_022560774.10.0protein indeterminate-domain 4, chloroplastic-like
RefseqXP_022560776.10.0protein indeterminate-domain 4, chloroplastic-like
SwissprotQ8GYC10.0IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A0D3DAB20.0A0A0D3DAB2_BRAOL; Uncharacterized protein
STRINGBo7g080200.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36781759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.10.0indeterminate(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]