PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araha.0022s0001.2.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 432aa    MW: 47606.3 Da    PI: 8.2705
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.0022s0001.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.93.8e-056686323
                         ETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                         C++Cgk F r  nL+ H r H
  Araha.0022s0001.2.p 66 CEICGKGFQRDQNLQLHRRGH 86
                         *******************88 PP
2zf-C2H211.20.0012140162123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C k++  +s+ k H +t+
  Araha.0022s0001.2.p 140 WKCEKCAKRYAVQSDWKAHSKTC 162
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.6E-56386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.59E-66386No hitNo description
PROSITE profilePS5015711.4896486IPR007087Zinc finger, C2H2
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.1E-4128161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.59E-6135160No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010150Biological Processleaf senescence
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 432 aa     Download sequence    Send to blast
MTSEVLQTIS SGSGFAQSSS TMDHDESLIN PPLVKKKRNL PGNPDPEAEV IALSPKTLMA  60
TNRFLCEICG KGFQRDQNLQ LHRRGHNLPW KLKQRTSKEV RKRVYVCPEK TCVHHHSSRA  120
LGDLTGIKKH FCRKHGEKKW KCEKCAKRYA VQSDWKAHSK TCGTREYRCD CGTIFSRRDS  180
FITHRAFCDA LAEETAKINA VSHLNDLAAA GAAGSVNINY QYLMGTFIPP LQPFVQQPQT  240
NQNHHQHFQP PPPSSLSLWM GQDIAPPQPQ PQDYDWVFGN AKAASACIDN NNTHAEHITQ  300
NANAALLQKA AEIGATSTTT AATNDPSTFL QSFPLKSSDQ TTTYDGGEKF FALFGSNNNI  360
GLMSHSHDHQ EIENATNDVT VASALDELQN YPWKRRRVDG GGEGGGGGQT RDFLGVGVQT  420
LCHPSSINGW I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-35136205372Zinc finger protein JACKDAW
5b3h_F2e-35136205372Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1393397KRRRV
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.0022s0001.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0372020.0AY037202.1 Arabidopsis thaliana AT5g44160/MLN1_8 mRNA, complete cds.
GenBankBT0026850.0BT002685.1 Arabidopsis thaliana At5g44160/MLN1_8 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002865381.10.0zinc finger protein NUTCRACKER
SwissprotQ9FFH30.0IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLD7MN230.0D7MN23_ARALL; Zinc finger family protein
STRINGscaffold_800604.10.0(Arabidopsis lyrata)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G44160.10.0C2H2-like zinc finger protein
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]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]