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 Tp57577_TGAC_v2_mRNA11534
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family C2H2
Protein Properties Length: 580aa    MW: 65323.2 Da    PI: 9.5815
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA11534genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.42.5e-05132154123
                                EEETTTTEEESSHHHHHHHHHHT CS
                    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                ++C+ C k F r  nL+ H r H
  Tp57577_TGAC_v2_mRNA11534 132 FVCEVCQKGFQREQNLQLHRRGH 154
                                89*******************88 PP
2zf-C2H212.50.00044208230123
                                EEETTTTEEESSHHHHHHHHHHT CS
                    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                +kC++C+k +  +s+ k H +t+
  Tp57577_TGAC_v2_mRNA11534 208 WKCEKCSKKYAVQSDWKAHSKTC 230
                                58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.91E-7131154No hitNo description
Gene3DG3DSA:3.30.160.601.7E-5131154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0077132154IPR015880Zinc finger, C2H2-like
PfamPF121717.3E-5132154IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.803132154IPR007087Zinc finger, C2H2
PROSITE patternPS000280134154IPR007087Zinc finger, C2H2
SMARTSM00355170173203IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-4196229IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.91E-7203228No hitNo description
SMARTSM00355140208228IPR015880Zinc 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: 580 aa     Download sequence    Send to blast
MYIEAKERDK RKERERDMGM VYVWVDKYKF FLVFSGFILK IFFQRDKKAR KIQICIKKIN  60
MAASSSSTPF LEIRQENQSQ ITQQLQSSTD ASSTAAQPLV PQKKRRNQPG TPYPDAEVIA  120
LSPKTLMATN RFVCEVCQKG FQREQNLQLH RRGHNLPWKL KQKSNKEPKR KVYLCPEPSC  180
VHHDPSRALG DLTGIKKHFS RKHGEKKWKC EKCSKKYAVQ SDWKAHSKTC GTREYRCDCG  240
TLFSRRDSFI THRAFCDALA HENARHPSNM NPLATHLFST NHIGLALNQN QQQSTNNNIL  300
TLGNIPCTPK FEHHLISPLH GSSSSFGQNQ QQSPQQQSMS SSPFFINDPN QTFQQDHLQG  360
PFSNKQLHLH HGLMQLPDLQ GNTNNNTSSS SVSPFNLSFF PNSNNTLHEQ FNNISEAHHH  420
HEGFSSLFGN SSMQQENMLS SPHMSATALL QKASQIGSTT TTTMNNNGVE SNEGIRSSME  480
NEHNQHLHGL MNSLGNGNTS IYDNNNLGQF HNVEENKKMS QQSLGNLCFG GSDKLTLDFL  540
GVGGMVRNMS NNTSGGGFSM SAMNNMDPKM ESTQGNQPF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-34204271370Zinc finger protein JACKDAW
5b3h_F1e-34204271370Zinc 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
PlantRegMapTp57577_TGAC_v2_mRNA11534
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
GenBankEU4174186e-92EU417418.1 Trifolium repens clone CloverSSR-078_A02_008_1 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024634627.10.0protein indeterminate-domain 5, chloroplastic
SwissprotQ8GYC11e-131IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A396JPT40.0A0A396JPT4_MEDTR; Putative transcription factor C2H2 family
STRINGXP_004498204.10.0(Cicer arietinum)
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
AT2G02070.11e-101indeterminate(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]