Plant Transcription Factor Database
Previous version: v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G78600.1
Common NameBBX22, DBB3, LZF1, STH3, T30F21.7
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 DBB
Protein Properties Length: 299aa    MW: 32863.6 Da    PI: 6.3097
Description light-regulated zinc finger protein 1
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G78600.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
     zf-B_box  5 kCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42
                  C+ +e  e++  C  ++  lC  C +++H        H++vpl
                 7******99*********************66899999999986 PP

     zf-B_box  3 erkCpeHeekelqlfCedCqqllCedClleeHkg...H 37
                  +kC+ ++e    +fC +++ llC++C +++H     H
                 689*******9********************9.33452 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5011910.395147IPR000315B-box-type zinc finger
CDDcd000213.43E-8347No hitNo description
PfamPF006432.1E-5447IPR000315B-box-type zinc finger
SMARTSM003361.1E-10447IPR000315B-box-type zinc finger
SMARTSM003363.8E-135299IPR000315B-box-type zinc finger
PROSITE profilePS501198.7595299IPR000315B-box-type zinc finger
PfamPF006433.1E-65589IPR000315B-box-type zinc finger
CDDcd000216.44E-95599No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009641Biological Processshade avoidance
GO:0009658Biological Processchloroplast organization
GO:0009718Biological Processanthocyanin-containing compound biosynthetic process
GO:0010099Biological Processregulation of photomorphogenesis
GO:0015995Biological Processchlorophyll biosynthetic process
GO:0016607Cellular Componentnuclear speck
GO:0000989Molecular Functiontranscription factor activity, transcription factor binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009025anatomyvascular leaf
PO:0009052anatomyflower pedicel
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 299 aa     Download sequence    Send to blast
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.192610.0bud| floral meristem| flower| root| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
Expression AtlasAT1G78600-
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation, independently and in concert with HY5 and BBX21 (PubMed:18540109, PubMed:18796637, PubMed:18182030, PubMed:21427283). Acts as a positive regulator of de-etiolation and influences chloroplast biogenesis and function through regulation of genes encoding chloroplast proteins (PubMed:18182030). Acts downstream of COP1 and play an important role in early and long-term adjustment of the shade avoidance syndrome (SAS) responses in natural environments (PubMed:21070414). Regulates the expression of genes responsive to light hormone signals which may contribute to optimal seedling development (PubMed:21427283). {ECO:0000269|PubMed:18182030, ECO:0000269|PubMed:18540109, ECO:0000269|PubMed:18796637, ECO:0000269|PubMed:21070414, ECO:0000269|PubMed:21427283}.
Function -- GeneRIF ? help Back to Top
  1. The isolation and characterization of light-regulated zinc finger protein 1 (LZF1), a HY5-regulated factor, is reported.
    [PMID: 18182030]
  2. Results identified STH3 {LIGHT-REGULATED ZINC FINGER1/SALT TOLERANCE HOMOLOG3) as a positive regulator of photomorphogenesis acting in concert with STH2 and HY5, while also being a target of COP1-mediated ubiquitination.
    [PMID: 18796637]
  3. Analysis of BBX22 degradation kinetics shows that it has a short half-life under both dark and light conditions. COP1 mediates the BBX22 degradation in the dark. Although dispensable in the dark, HY5 contributes to the BBX22 degradation in the light.
    [PMID: 21427283]
  4. Data suggest that BBX25 (At2g31380) and BBX24 (At1g06040) function as transcriptional corepressors, probably by forming inactive heterodimers with HY5 (At5g11260) downregulating BBX22 (AT1G78600) expression for the light-mediated seedling development.
    [PMID: 23624715]
Cis-element ? help Back to Top
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:18182030}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source Upstream Regulator (A: Activate/R: Repress)
ATRM AT5G11260 (A)
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT1G56650(A)
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9SYM2
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Increased hypocotyl length under short day conditions (PubMed:18796637). Delayed chloroplast development (PubMed:18182030). {ECO:0000269|PubMed:18182030}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G78600
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0873870.0AY087387.1 Arabidopsis thaliana clone 34830 mRNA, complete sequence.
GenBankAY0931080.0AY093108.1 Arabidopsis thaliana highly similar to rice zinc finger protein (At1g78600) mRNA, complete cds.
GenBankBT0063240.0BT006324.1 Arabidopsis thaliana At1g78600 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_565183.10.0light-regulated zinc finger protein 1
SwissprotQ9SYM20.0BBX22_ARATH; B-box zinc finger protein 22
TrEMBLF4IBS40.0F4IBS4_ARATH; Light-regulated zinc finger protein 1
STRINGAT1G78600.20.0(Arabidopsis thaliana)
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
  2. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
  3. S
    ABA activates ADPR cyclase and cADPR induces a subset of ABA-responsive genes in Arabidopsis.
    Plant J., 2004. 38(3): p. 381-95
  4. Sharma N,Cram D,Huebert T,Zhou N,Parkin IA
    Exploiting the wild crucifer Thlaspi arvense to identify conserved and novel genes expressed during a plant's response to cold stress.
    Plant Mol. Biol., 2007. 63(2): p. 171-84
  5. Charng YY, et al.
    A heat-inducible transcription factor, HsfA2, is required for extension of acquired thermotolerance in Arabidopsis.
    Plant Physiol., 2007. 143(1): p. 251-62
  6. Chang CS, et al.
    LZF1, a HY5-regulated transcriptional factor, functions in Arabidopsis de-etiolation.
    Plant J., 2008. 54(2): p. 205-19
  7. Kumagai T, et al.
    The common function of a novel subfamily of B-Box zinc finger proteins with reference to circadian-associated events in Arabidopsis thaliana.
    Biosci. Biotechnol. Biochem., 2008. 72(6): p. 1539-49
  8. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
  9. Datta S, et al.
    LZF1/SALT TOLERANCE HOMOLOG3, an Arabidopsis B-box protein involved in light-dependent development and gene expression, undergoes COP1-mediated ubiquitination.
    Plant Cell, 2008. 20(9): p. 2324-38
  10. Khanna R, et al.
    The Arabidopsis B-box zinc finger family.
    Plant Cell, 2009. 21(11): p. 3416-20
  11. Crocco CD,Holm M,Yanovsky MJ,Botto JF
    AtBBX21 and COP1 genetically interact in the regulation of shade avoidance.
    Plant J., 2010. 64(4): p. 551-62
  12. Crocco CD,Holm M,Yanovsky MJ,Botto JF
    Function of B-BOX under shade.
    Plant Signal Behav, 2011. 6(1): p. 101-4
  13. Chang CS,Maloof JN,Wu SH
    COP1-mediated degradation of BBX22/LZF1 optimizes seedling development in Arabidopsis.
    Plant Physiol., 2011. 156(1): p. 228-39
  14. Yamawaki S,Yamashino T,Nakamichi N,Nakanishi H,Mizuno T
    Light-responsive double B-box containing transcription factors are conserved in Physcomitrella patens.
    Biosci. Biotechnol. Biochem., 2011. 75(10): p. 2037-41
  15. Sarmiento F
    The BBX subfamily IV: additional cogs and sprockets to fine-tune light-dependent development.
    Plant Signal Behav, 2013. 8(4): p. e23831
  16. Gangappa SN, et al.
    The Arabidopsis B-BOX protein BBX25 interacts with HY5, negatively regulating BBX22 expression to suppress seedling photomorphogenesis.
    Plant Cell, 2013. 25(4): p. 1243-57
  17. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73