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 GRMZM2G155662_P02
Organism
Zea mays
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea
Family Whirly
Protein Properties Length: 205aa    MW: 22338.6 Da    PI: 10.1861
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM2G155662_P02genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly157.44.3e-49912011111
             Whirly   1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrk 92 
                        s+yk+kaal+ +++ p f+ ldsg+ k+ ++G++ll++a+a+a+r+ydW +kq+f+ls+ e+++l+ l++ +sceffhdp+++ s+eGkvrk
  GRMZM2G155662_P02  91 SIYKGKAALSFDPRPPLFVPLDSGAYKVAKEGFVLLQFAPAVATRQYDWTRKQVFSLSVWEIGTLLTLGPTDSCEFFHDPFKGRSEEGKVRK 182
                        7******************************************************************************************* PP

             Whirly  93 alkvePlpdGsGlfvnlsv 111
                        +lk+eP pdG G f+nl+ 
  GRMZM2G155662_P02 183 VLKIEPTPDGNGRFFNLKS 201
                        *****************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.106.1E-5678201IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544471.57E-4684200IPR009044ssDNA-binding transcriptional regulator
PfamPF085367.0E-4892202IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0032211Biological Processnegative regulation of telomere maintenance via telomerase
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045910Biological Processnegative regulation of DNA recombination
GO:0005634Cellular Componentnucleus
GO:0009508Cellular Componentplastid chromosome
GO:0009570Cellular Componentchloroplast stroma
GO:0003677Molecular FunctionDNA binding
GO:0003697Molecular Functionsingle-stranded DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003723Molecular FunctionRNA binding
GO:0042162Molecular Functiontelomeric DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 205 aa     Download sequence    Send to blast
MPPPAPLFLS LASTPPPALM PVHHPRAPQS LTLVPPVASS RKAAAVPACP VASPRHSDYF  60
DPRAPPPPRG DGGYGRPPNG AQDGRVFTSY SIYKGKAALS FDPRPPLFVP LDSGAYKVAK  120
EGFVLLQFAP AVATRQYDWT RKQVFSLSVW EIGTLLTLGP TDSCEFFHDP FKGRSEEGKV  180
RKVLKIEPTP DGNGRFFNLK SAYQR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1l3a_A4e-585519912151p24: plant transcriptional regulator PBF-2
1l3a_B4e-585519912151p24: plant transcriptional regulator PBF-2
1l3a_C4e-585519912151p24: plant transcriptional regulator PBF-2
1l3a_D4e-585519912151p24: plant transcriptional regulator PBF-2
4koo_A8e-59851998122Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_B8e-59851998122Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_C8e-59851998122Single-stranded DNA-binding protein WHY1, chloroplastic
4koo_D8e-59851998122Single-stranded DNA-binding protein WHY1, chloroplastic
4koq_A9e-59851998122Single-stranded DNA-binding protein WHY3, chloroplastic
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Zm.886810.0cell culture| ear| meristem| ovary| pedicel| shoot
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM2G155662
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA and RNA binding protein that maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. Functions in RNA metabolism and is involved in the maturation of the atpF and 23S ribosomal RNAs. {ECO:0000269|PubMed:18676978, ECO:0000269|PubMed:19666500}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGRMZM2G155662_P02
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0433600.0BT043360.1 Zea mays full-length cDNA clone ZM_BFc0169P08 mRNA, complete cds.
GenBankEU5956640.0EU595664.1 Zea mays Whirly family nucleic acid binding protein (WHY1) mRNA, complete cds.
GenBankJX4699720.0JX469972.1 Zea mays subsp. mays clone UT3235 WHIRLY-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001123589.11e-142single-stranded DNA-binding protein WHY1, chloroplastic
SwissprotB2LXS71e-143WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBLA0A1Q1AUG71e-141A0A1Q1AUG7_MAIZE; Whirly1
TrEMBLK4JBV11e-141K4JBV1_MAIZE; WHIRLY-type transcription factor (Fragment)
STRINGGRMZM2G155662_P011e-141(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14410.12e-59ssDNA-binding transcriptional regulator
Publications ? help Back to Top
  1. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]