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 Carubv10016990m
Common NameCARUB_v10016990mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 535aa    MW: 57865.4 Da    PI: 9.3664
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10016990mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.72e-05101123123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      ++C  C+k F r  nL+ H r H
  Carubv10016990m 101 FVCDVCNKGFQREQNLQLHRRGH 123
                      89*******************88 PP
2zf-C2H213.30.00025177199123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC++C+k++  +s+ k H +t+
  Carubv10016990m 177 WKCEKCSKRYAVQSDWKAHSKTC 199
                      58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.59E-7100123No hitNo description
Gene3DG3DSA:3.30.160.601.4E-5100123IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0047101123IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.032101123IPR007087Zinc finger, C2H2
PROSITE patternPS000280103123IPR007087Zinc finger, C2H2
SMARTSM00355110142172IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.4E-5165198IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.59E-7172197No hitNo description
SMARTSM00355130177197IPR015880Zinc 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: 535 aa     Download sequence    Send to blast
MHHLLLDCSL PRKEEDLKMS SSSYNTSVIP SSSSSAQPFF ITSSGVGDND FNRKDPFMSM  60
IQQPNSSAPP LKKRRNQPGN PNPDAEVVAL SPKTLMATNR FVCDVCNKGF QREQNLQLHR  120
RGHNLPWKLK QKSTKEVKRK VYLCPEPTCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCE  180
KCSKRYAVQS DWKAHSKTCG TKEYRCDCGT IFSRRDSYIT HRAFCDALIQ ETARNPTVSF  240
TSMAAASSGV GSGGIYGRLG GGSALSHHHM SGHPNSGFNP LAGYNLNIAS SENRRDFVPQ  300
SANPNFLLQC SSSQGMLTAT PNNNDQSFMN QHGLIQFDPV DNINLKSSGT NNSFFNLGFF  360
QENTKNSETS LPSLYSNDVL VHHREEELNT GSNVSATALL QKATQMGSVT SNDSALFRGL  420
ASSSNSTSLI PSHFGGGRIM ENDNNGNLQG LMNSLAAVNA TGGGSGGNIF DVHFGNNGNM  480
SGSDKLTLDF LGVGGMVRNA NRGGGGRGSG SGRGGVSLDG EAKFPEQNHP FGRG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-34173239369Zinc finger protein JACKDAW
5b3h_F4e-34173239369Zinc 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
PlantRegMapCarubv10016990m
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1177330.0AK117733.1 Arabidopsis thaliana At2g02080 mRNA for putative C2H2-type zinc finger protein, complete cds, clone: RAFL17-41-L01.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290880.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638726.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638727.10.0protein indeterminate-domain 4, chloroplastic
SwissprotQ8GYC10.0IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLR0FMS20.0R0FMS2_9BRAS; Uncharacterized protein
STRINGXP_006290879.10.0(Capsella rubella)
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]