PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Tp57577_TGAC_v2_mRNA14231
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family Whirly
Protein Properties Length: 264aa    MW: 29641 Da    PI: 9.3581
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA14231genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly172.21.2e-53832221138
                     Whirly   1 svyktkaalkvkavrptfealds..gnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaa 82 
                                s+yk+ka l+v ++ p+f++l+s  g++k++++G ++le+a+a++  +ydW++kq+f+ls+ e+++l++l ++esceffhd + 
  Tp57577_TGAC_v2_mRNA14231  83 SIYKAKAVLTVSPRPPQFTTLNSgsGAFKISKEGCVMLEFAPAAGAYQYDWNRKQVFSLSVDEIGNLISLRPRESCEFFHDLFI 166
                                79*****************998622689******************************************************** PP

                     Whirly  83 kgsneGkvrkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsll 138
                                ++s+eGkvrk lkv+Pl d sG+++n+sv+n+l + ne++ +Pv+kaefav++sl+
  Tp57577_TGAC_v2_mRNA14231 167 GKSDEGKVRKFLKVKPLLDRSGHMFNISVENKLENINENILIPVTKAEFAVFNSLF 222
                                ****************************************************9987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.1E-6672245IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544471.33E-6377256IPR009044ssDNA-binding transcriptional regulator
PfamPF085361.3E-5384220IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 264 aa     Download sequence    Send to blast
MKILQAQSYT TTTNPFSIPT HSFITPKLSI PVRHVGPTFS STLQQFSITC RRPYPFQPKQ  60
SPPPPSPSSS VGELPAKIYV GHSIYKAKAV LTVSPRPPQF TTLNSGSGAF KISKEGCVML  120
EFAPAAGAYQ YDWNRKQVFS LSVDEIGNLI SLRPRESCEF FHDLFIGKSD EGKVRKFLKV  180
KPLLDRSGHM FNISVENKLE NINENILIPV TKAEFAVFNS LFDFIMPSLL GWNVFTNTIN  240
PEVNNTNQGI EEDFEWNKFN RIM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4koo_A2e-78742405169Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_B2e-78742405169Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_C2e-78742405169Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_D2e-78742405169Single-stranded DNA-binding protein WHY1, chloroplastic
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 nucleus, modulates telomere length homeostasis by inhibiting the action of the telomerase at the extreme termini of chromosomes. Is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Is required for full salicylic acid-dependent plant disease resistance responses. Can bind double-stranded DNA in vivo. {ECO:0000269|PubMed:14960277, ECO:0000269|PubMed:17217467, ECO:0000269|PubMed:19666500, ECO:0000269|PubMed:19669906, ECO:0000269|PubMed:20551348, ECO:0000269|PubMed:21911368}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA14231
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salicylic acid (SA) and infection by H.parasitica. {ECO:0000269|PubMed:14960277, ECO:0000269|PubMed:19669906}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1830858e-68AY183085.1 Trifolium repens clone ca297 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004490008.11e-115single-stranded DNA-binding protein WHY1, chloroplastic-like isoform X1
SwissprotQ9M9S33e-86WHY1_ARATH; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBLA0A2Z6P8551e-125A0A2Z6P855_TRISU; Uncharacterized protein
STRINGXP_004490009.11e-114(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF64163251
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14410.19e-80ssDNA-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. Carella P,Wilson DC,Cameron RK
    Some things get better with age: differences in salicylic acid accumulation and defense signaling in young and mature Arabidopsis.
    Front Plant Sci, 2014. 5: p. 775
    [PMID:25620972]
  3. 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]
  4. Ren Y,Li Y,Jiang Y,Wu B,Miao Y
    Phosphorylation of WHIRLY1 by CIPK14 Shifts Its Localization and Dual Functions in Arabidopsis.
    Mol Plant, 2017. 10(5): p. 749-763
    [PMID:28412544]
  5. 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]
  6. Huang D,Lin W,Deng B,Ren Y,Miao Y
    Dual-Located WHIRLY1 Interacting with LHCA1 Alters Photochemical Activities of Photosystem I and Is Involved in Light Adaptation in Arabidopsis.
    Int J Mol Sci, 2018.
    [PMID:29112140]
  7. Guan Z,Wang W,Yu X,Lin W,Miao Y
    Comparative Proteomic Analysis of Coregulation of CIPK14 and WHIRLY1/3 Mediated Pale Yellowing of Leaves in Arabidopsis.
    Int J Mol Sci, 2018.
    [PMID:30065159]