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 LOC_Os04g41560.2
Common NameLOC4336260, OJ990528_30.8, Os04g0493000, OSJNBb0091E11.3
Organism
Oryza sativa subsp. japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family DBB
Protein Properties Length: 258aa    MW: 27136.7 Da    PI: 4.6705
Description DBB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g41560.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-B_box22.72e-07446541
          zf-B_box  5 kCpeHeekelqlfCedCqqllCedClleeHkg......Htvvp 41
                       C+ +e   ++  C  ++  lC+ C +e+H        H++ p
  LOC_Os04g41560.2  4 QCDACEAAAATVVCCADEAALCARCDVEIHAAnklaskHQRLP 46
                      6******99*********************6678888898877 PP
2zf-B_box26.71.2e-085586334
          zf-B_box  3 erkCpeHeekelqlfCedCqqllCedClleeH 34
                       ++C+ ++ek + +fC +++ l+C+dC + +H
  LOC_Os04g41560.2 55 LPRCDVCQEKAAFIFCVEDRALFCRDCDEPIH 86
                      589**************************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5011910.096147IPR000315B-box-type zinc finger
SMARTSM003364.6E-9447IPR000315B-box-type zinc finger
PfamPF006433.0E-5447IPR000315B-box-type zinc finger
SMARTSM003365.0E-1453100IPR000315B-box-type zinc finger
PROSITE profilePS501198.53253100IPR000315B-box-type zinc finger
PfamPF006432.6E-65696IPR000315B-box-type zinc finger
CDDcd000211.16E-75686No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009640Biological Processphotomorphogenesis
GO:0009651Biological Processresponse to salt stress
GO:0048573Biological Processphotoperiodism, flowering
GO:0080167Biological Processresponse to karrikin
GO:0090351Biological Processseedling development
GO:1902448Biological Processpositive regulation of shade avoidance
GO:0005634Cellular Componentnucleus
GO:0003712Molecular Functiontranscription cofactor activity
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0020039anatomyleaf lamina
Sequence ? help Back to Top
Protein Sequence    Length: 258 aa     Download sequence    Send to blast
MRIQCDACEA AAATVVCCAD EAALCARCDV EIHAANKLAS KHQRLPLDAA LPAALPRCDV  60
CQEKAAFIFC VEDRALFCRD CDEPIHVPGT LSGNHQRYLT TGIRVGFSSV CSANADHLPP  120
PAPKGNSKPP ASGIAAAAAP KPAVSAAAQE VPSSPFLPPS GWAVEDLLQL SDYESSDKKG  180
SPIGFKDLEW LDDIDLFHVQ SPAKGGSTAA EVPELFASPQ PASNMGLYKA SGARQSKKPR  240
VEIPDDDEDF FIVPDLG*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.1000630.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasO82113
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: High expression in leaves and lower in roots and flowers.
Functional Description ? help Back to Top
Source Description
UniProtActs as negative regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation (PubMed:17605755, PubMed:18540109, PubMed:21685177). BBX24/STO and BBX25/STH function as transcriptional corepressors of HY5 activity, leading to the down-regulation of BBX22 expression. BBX24/STO acts additively with BBX25/STH during de-etiolation and the hypocotyl shade avoidance response (PubMed:23624715). Functions as negative regulator of photomorphogenic UV-B responses by interacting with both COP1 and HY5 (PubMed:22410790). May act as a transcription factor in the salt-stress response (PubMed:12909688). {ECO:0000269|PubMed:12909688, ECO:0000269|PubMed:17605755, ECO:0000269|PubMed:18540109, ECO:0000269|PubMed:21685177, ECO:0000269|PubMed:22410790, ECO:0000269|PubMed:23624715}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g41560.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian regulation with a peak before dawn. {ECO:0000269|PubMed:17605755}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g41560
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0018830.0AB001883.1 Oryza sativa Japonica Group mRNA for zinc finger protein, complete cds, clone:E10707.
GenBankHQ3248050.0HQ324805.1 Oryza sativa Japonica Group clone KCB761B05 zinc finger protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636444.10.0B-box zinc finger protein 24
SwissprotQ962882e-73BBX24_ARATH; B-box zinc finger protein 24
TrEMBLO821130.0O82113_ORYSJ; OJ990528_30.8 protein
STRINGORGLA04G0142700.10.0(Oryza glaberrima)
STRINGORGLA08G0014000.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP32023368
Representative plantOGRP53971020
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G06040.18e-51DBB family protein
Publications ? help Back to Top
  1. Gangappa SN,Holm M,Botto JF
    Molecular interactions of BBX24 and BBX25 with HYH, HY5 HOMOLOG, to modulate Arabidopsis seedling development.
    Plant Signal Behav, 2014.
    [PMID:23733077]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Imtiaz M, et al.
    Identification and functional characterization of the BBX24 promoter and gene from chrysanthemum in Arabidopsis.
    Plant Mol. Biol., 2015. 89(1-2): p. 1-19
    [PMID:26253592]
  4. Job N,Yadukrishnan P,Bursch K,Datta S,Johansson H
    Two B-Box Proteins Regulate Photomorphogenesis by Oppositely Modulating HY5 through their Diverse C-Terminal Domains.
    Plant Physiol., 2018. 176(4): p. 2963-2976
    [PMID:29439209]
  5. Song J, et al.
    Isolation and mapping of a family of putative zinc-finger protein cDNAs from rice.
    DNA Res., 1998. 5(2): p. 95-101
    [PMID:9679197]