PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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 AT5G44160.1
Common NameAtIDD8, IDD8, MLN1.8, NUC
Organism
Arabidopsis thaliana
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: 466aa    MW: 51189.1 Da    PI: 8.1499
Description C2H2-like zinc finger protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G44160.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2157e-056888323
                 ETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                 C+ Cgk F r  nL+ H r H
  AT5G44160.1 68 CEVCGKGFQRDQNLQLHRRGH 88
                 *******************88 PP
2zf-C2H2110.0014142164123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  ++C++C k++  +s+ k H +t+
  AT5G44160.1 142 WTCEKCAKRYAVQSDWKAHSKTC 164
                  58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576678.66E-66588No hitNo description
Gene3DG3DSA:3.30.160.602.5E-56588IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.516688IPR007087Zinc finger, C2H2
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.7E-4130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.66E-6137162No 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000014anatomyrosette leaf
PO:0000039anatomyshoot axis vascular system
PO:0000045anatomyembryo root
PO:0000293anatomyguard cell
PO:0006081anatomyprimary root apical meristem
PO:0009001anatomyfruit
PO:0009005anatomyroot
PO:0009009anatomyplant embryo
PO:0009046anatomyflower
PO:0009047anatomystem
Sequence ? help Back to Top
Protein Sequence    Length: 466 aa     Download sequence    Send to blast
MTSEVLQTIS SGSGFAQPQS SSTLDHDESL INPPLVKKKR NLPGNPDPEA EVIALSPTTL  60
MATNRFLCEV CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EVRKRVYVCP EKTCVHHHSS  120
RALGDLTGIK KHFCRKHGEK KWTCEKCAKR YAVQSDWKAH SKTCGTREYR CDCGTIFSRR  180
DSFITHRAFC DALAEETAKI NAVSHLNGLA AAGAPGSVNL NYQYLMGTFI PPLQPFVPQP  240
QTNPNHHHQH FQPPTSSSLS LWMGQDIAPP QPQPDYDWVF GNAKAASACI DNNNTHDEQI  300
TQNANASLTT TTTLSAPSLF SSDQPQNANA NSNVNMSATA LLQKAAEIGA TSTTTAATND  360
PSTFLQSFPL KSTDQTTSYD SGEKFFALFG SNNNIGLMSR SHDHQEIENA RNDVTVASAL  420
DELQNYPWKR RRVDGGGEVG GGGQTRDFLG VGVQTLCHPS SINGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-35138207372Zinc finger protein JACKDAW
5b3h_F8e-35138207372Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1428432KRRRV
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO425683110.0
Genevisible249034_at0.0
Expression AtlasAT5G44160-
AtGenExpressAT5G44160-
ATTED-IIAT5G44160-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}.
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
PlantRegMapAT5G44160.1
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-
Interaction ? help Back to Top
Source Intact With
BioGRIDAT1G50420
IntActSearch Q9FFH3
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Delayed flowering. {ECO:0000269|PubMed:21265895}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G44160
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
RefseqNP_199229.10.0C2H2-like zinc finger protein
SwissprotQ9FFH30.0IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLA0A178UFY20.0A0A178UFY2_ARATH; NUC
STRINGAT5G44160.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Representative plantOGRP9516242
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Dal Bosco C, et al.
    Inactivation of the chloroplast ATP synthase gamma subunit results in high non-photochemical fluorescence quenching and altered nuclear gene expression in Arabidopsis thaliana.
    J. Biol. Chem., 2004. 279(2): p. 1060-9
    [PMID:14576160]
  3. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  4. Englbrecht CC,Schoof H,B
    Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome.
    BMC Genomics, 2004. 5(1): p. 39
    [PMID:15236668]
  5. Wildwater M, et al.
    The RETINOBLASTOMA-RELATED gene regulates stem cell maintenance in Arabidopsis roots.
    Cell, 2005. 123(7): p. 1337-49
    [PMID:16377572]
  6. Levesque MP, et al.
    Whole-genome analysis of the SHORT-ROOT developmental pathway in Arabidopsis.
    PLoS Biol., 2006. 4(5): p. e143
    [PMID:16640459]
  7. Colasanti J, et al.
    The maize INDETERMINATE1 flowering time regulator defines a highly conserved zinc finger protein family in higher plants.
    BMC Genomics, 2006. 7: p. 158
    [PMID:16784536]
  8. Morita MT, et al.
    A C2H2-type zinc finger protein, SGR5, is involved in early events of gravitropism in Arabidopsis inflorescence stems.
    Plant J., 2006. 47(4): p. 619-28
    [PMID:16813575]
  9. Seo PJ,Ryu J,Kang SK,Park CM
    Modulation of sugar metabolism by an INDETERMINATE DOMAIN transcription factor contributes to photoperiodic flowering in Arabidopsis.
    Plant J., 2011. 65(3): p. 418-29
    [PMID:21265895]
  10. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  11. Jeong EY,Seo PJ,Woo JC,Park CM
    AKIN10 delays flowering by inactivating IDD8 transcription factor through protein phosphorylation in Arabidopsis.
    BMC Plant Biol., 2015. 15: p. 110
    [PMID:25929516]
  12. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  13. 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]