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 Zosma23g01450.1
Common NameZOSMA_23G01450
Organism
Zostera marina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Zosteraceae; Zostera
Family Whirly
Protein Properties Length: 256aa    MW: 28511.5 Da    PI: 9.038
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Zosma23g01450.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly196.92.9e-61822201139
           Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkal 94 
                      s+yk+kaal+  ++ p+f+ ldsg+ k+ r+G++ll++a++++ r+ydW++kq+f+ls+ ev++++ l +k+sceffhdp++++s+eGk+rk l
  Zosma23g01450.1  82 SIYKGKAALTASPKPPEFTLLDSGAYKVLREGAVLLQFAPSVGIRQYDWSRKQVFSLSVPEVGSILCLDAKDSCEFFHDPFKGKSEEGKIRKIL 175
                      7********************************************************************************************* PP

           Whirly  95 kvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                      kvePlpdGsG+f+nlsv+n  ++++e++++P++kaefa+l+s+++
  Zosma23g01450.1 176 KVEPLPDGSGHFFNLSVQNRTMNVDENIYIPITKAEFAILKSAFN 220
                      ******************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.103.3E-7472242IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544478.63E-7174253IPR009044ssDNA-binding transcriptional regulator
PfamPF085365.7E-5983218IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045910Biological Processnegative regulation of DNA recombination
GO:0009508Cellular Componentplastid chromosome
GO:0009570Cellular Componentchloroplast stroma
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003723Molecular FunctionRNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 256 aa     Download sequence    Send to blast
MEFSLQNPTI AAKTLTTTTL FSSILPFHHP QTLTLPKRKN SLSTKSLHSI ISCNYYDQQK  60
LTVSSAADEV LHQSPRVYVG HSIYKGKAAL TASPKPPEFT LLDSGAYKVL REGAVLLQFA  120
PSVGIRQYDW SRKQVFSLSV PEVGSILCLD AKDSCEFFHD PFKGKSEEGK IRKILKVEPL  180
PDGSGHFFNL SVQNRTMNVD ENIYIPITKA EFAILKSAFN FIVPHLLGWA AFANSIKPES  240
SSNNTRYDTE QEWGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1l3a_A2e-947425335218p24: plant transcriptional regulator PBF-2
1l3a_B2e-947425335218p24: plant transcriptional regulator PBF-2
1l3a_C2e-947425335218p24: plant transcriptional regulator PBF-2
1l3a_D2e-947425335218p24: plant transcriptional regulator PBF-2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA-binding protein that functions in both chloroplasts and nucleus. In chloroplasts, maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. In the nucleus, is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Can bind double-stranded DNA in vivo. {ECO:0000269|PubMed:19666500, ECO:0000269|PubMed:19669906, ECO:0000269|PubMed:20551348, ECO:0000269|PubMed:21911368}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salicylic acid (SA). {ECO:0000269|PubMed:19669906}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_026665922.11e-107single-stranded DNA-binding protein WHY1, chloroplastic-like
SwissprotQ66GR64e-99WHY3_ARATH; Single-stranded DNA-binding protein WHY3, chloroplastic
TrEMBLA0A0K9PHQ30.0A0A0K9PHQ3_ZOSMR; DNA-binding protein p24
STRINGXP_008809721.11e-106(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30123885
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02740.21e-102ssDNA-binding transcriptional regulator
Publications ? help Back to Top
  1. Lepage É,Zampini É,Brisson N
    Plastid genome instability leads to reactive oxygen species production and plastid-to-nucleus retrograde signaling in Arabidopsis.
    Plant Physiol., 2013. 163(2): p. 867-81
    [PMID:23969600]
  2. Zampini É,Lepage É,Tremblay-Belzile S,Truche S,Brisson N
    Organelle DNA rearrangement mapping reveals U-turn-like inversions as a major source of genomic instability in Arabidopsis and humans.
    Genome Res., 2015. 25(5): p. 645-54
    [PMID:25800675]
  3. Karpinska B,Alomrani SO,Foyer CH
    Inhibitor-induced oxidation of the nucleus and cytosol in Arabidopsis thaliana: implications for organelle to nucleus retrograde signalling.
    Philos. Trans. R. Soc. Lond., B, Biol. Sci., 2018.
    [PMID:28808105]