PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.006G240700.3.p
Organism
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; Sorghinae; Sorghum
Family AP2
Protein Properties Length: 397aa    MW: 42109 Da    PI: 7.4618
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G240700.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP223.41.4e-0733661755
                   AP2 17 AeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55
                          +++rd      + k+++lg f+ta  Aa+a+++a+ k++g
  Sobic.006G240700.3.p 33 VQCRD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 66
                          78999......55************************997 PP

2AP245.32.1e-14109159155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s+++GV+ +k  grW+A+   +     +k+++lg f+t+eeAa+a+++a+ k +g
  Sobic.006G240700.3.p 109 SKFRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 159
                           79********.7******5553..2.26**********************99776 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5103210.995174IPR001471AP2/ERF domain
SMARTSM003803.2E-113480IPR001471AP2/ERF domain
SuperFamilySSF541714.18E-93875IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.8E-113974IPR001471AP2/ERF domain
SuperFamilySSF541714.45E-18109169IPR016177DNA-binding domain
CDDcd000181.09E-26109169No hitNo description
PfamPF008472.5E-10109159IPR001471AP2/ERF domain
PROSITE profilePS5103216.067110167IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.108.5E-17110167IPR001471AP2/ERF domain
SMARTSM003803.3E-33110173IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 397 aa     Download sequence    Send to blast
MPSLSLFLCV PLSLSYSYLS AVSHSPCSLL VLVQCRDCGK QVYLGGFDTA HAAARAYDRA  60
AIKFRGVEAD INFSLEDYQD DMKQMGHLSK EEFVHVLRRQ STGFPRGSSK FRGVTLHKCG  120
RWEARMGQFL GKKYVYLGLF DTEEEAARAY DRAAIKCNGK DAVTNFDPSI YAEELEPAAS  180
TGGGSGGGDD EHNLDLSLGS SAGNKRGSLD GGGGGDDETS DQRVPMAFDI DWQTAAPRST  240
KAKQACHVST TGWQLDASSK QPQMLPPPLP PPPALQVAHH LPLPFSPRHP QFLSNGDPGT  300
AGGLSLAIGG AGGGGGGGHW TPQLQHQQQH HQQRLHGGVW ANGGGTSWPP PPHPPPPTTA  360
ATAAAASSRF PPYVVTTQGP AGWVQKNGFH SLARPT*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In developing panicles, highly expressed in the spikelet abscission zone (AZ) and the inner floral organs of 2 mm long spikelets. Later present at weak levels in the apiculus as well as in the palea and lemma to progressively fades out in 8 mm long spikelets. {ECO:0000269|PubMed:22408071}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, leaves, stems, nodes, sheaths, panicles and young spikelets. Accumulates in the spikelet abscission zone (AZ) via a positive regulation by the transcription factor SH4. {ECO:0000269|PubMed:22408071}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor (PubMed:22408071). Involved in spikelet transition and development (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269|PubMed:22408071}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G240700.3.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0626960.0BT062696.1 Zea mays full-length cDNA clone ZM_BFb0334I17 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021319463.10.0AP2-like ethylene-responsive transcription factor TOE3 isoform X2
SwissprotB8AVJ91e-139APL25_ORYSI; APETALA2-like protein 5
TrEMBLA0A1Z5RGF50.0A0A1Z5RGF5_SORBI; Uncharacterized protein
STRINGSb06g030670.11e-173(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP55143658
Representative plantOGRP4971784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36920.29e-76AP2 family protein
Publications ? help Back to Top
  1. Zhou Y, et al.
    Genetic control of seed shattering in rice by the APETALA2 transcription factor shattering abortion1.
    Plant Cell, 2012. 24(3): p. 1034-48
    [PMID:22408071]