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.002G083600.1.p
Common NameSb02g007000, SORBIDRAFT_02g007000
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: 540aa    MW: 57390.4 Da    PI: 8.738
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G083600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP254.14e-17203252155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s+y+GV++++++grW+++I+d      + k+++lg f+ta  Aa+a+++a+ k++g
  Sobic.002G083600.1.p 203 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 252
                           78*******************......55************************998 PP

2AP242.41.7e-13295345155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpseng...krkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s+y+GV+ +k  grW+A+       g    +k+++lg f+++ eAa+a+++a+ +++g
  Sobic.002G083600.1.p 295 SKYRGVTLHK-CGRWEAR---M---GqllGKKYIYLGLFDSEIEAARAYDRAAIRFNG 345
                           89********.7******...5...334336**********99**********99987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541719.81E-16203261IPR016177DNA-binding domain
PfamPF008472.6E-9203252IPR001471AP2/ERF domain
PROSITE profilePS5103217.952204260IPR001471AP2/ERF domain
CDDcd000186.60E-11204260No hitNo description
Gene3DG3DSA:3.30.730.104.2E-17204260IPR001471AP2/ERF domain
SMARTSM003802.0E-31204266IPR001471AP2/ERF domain
CDDcd000187.05E-25295355No hitNo description
PfamPF008474.1E-9295345IPR001471AP2/ERF domain
SuperFamilySSF541716.41E-17295354IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.105.6E-16296354IPR001471AP2/ERF domain
SMARTSM003801.2E-32296359IPR001471AP2/ERF domain
PROSITE profilePS5103216.081296353IPR001471AP2/ERF domain
PRINTSPR003672.1E-6297308IPR001471AP2/ERF domain
PRINTSPR003672.1E-6335355IPR001471AP2/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: 540 aa     Download sequence    Send to blast
MASPAIPFAP LTSHRAVPFV LGCPPPWPPR PPPAAPGRPP RPDAAAAARL LEEEARAGSS  60
RARSPAGRPE LESMVLDLNA ESPTAGSASA TSSSSGVFRF DLLGGTPDEE GCSPSPPVVT  120
RQLFPLPSYP DAAAAPTAAS NGSPPPPQAA GPWARRAADL VAPALGQGQG QGAVVMPAPS  180
SPPAAVSPAA GKKSRRGPRS RSSQYRGVTF YRRTGRWESH IWDCGKQVYL GGFDTAHAAA  240
RAYDRAAIKF RGLDADINFQ LKDYEDDLKQ MKNWTKEEFV HILRRQSTGF ARGSSKYRGV  300
TLHKCGRWEA RMGQLLGKKY IYLGLFDSEI EAARAYDRAA IRFNGPDAVT NFDSSSYDGD  360
VPLPTAIEKD VVDGDILDLN LRISQPNVHD LKSDGTLTGF GLGCNSPEAS SSIVSQPISP  420
QWPVHPHSTP MQLQHPHLYA SPCPGFFVNL REAPMEEEKR AERAGPEPAF PSWAWQTQGS  480
PAPFLPATAT AASSGFSTAA TTTGVDAATA ARSVPPSLSG GPRQLFSGYQ LQLRFPPTA*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First detected in the boundary region of the shoot apical meristem (SAM) and the surrounding sheath. Expressed at low levels in vegetative organs, mostly in the sheaths. In inflorescence tissues, observed in the branch meristem and spikelet meristem regions, as well as in their vasculature and surrounding sheath (PubMed:17144896). Accumulates in incipient rudimentary- and empty-glume primordia (PubMed:22003982). Highly abundant in young developing panicles, but becomes later present at low levels in developing panicles and seeds. Found primarily in the boundary region of glume primordia (PubMed:17144896). {ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:22003982}.
UniprotTISSUE SPECIFICITY: Highly expressed in seedlings and developing panicles (PubMed:17144896, PubMed:20017947, PubMed:22003982). Mostly expressed in newly emerging spikelet meristems and, at low levels, in shoots, roots, panicles, mature spikelets and sheaths (PubMed:17144896). {ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:20017947, ECO:0000269|PubMed:22003982}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor (By similarity). Involved in spikelet transition (Probable). Together with IDS1, controls synergistically inflorescence architecture and floral meristem establishment via the regulation of spatio-temporal expression of B- and E-function floral organ identity genes in the lodicules and of spikelet meristem genes (PubMed:22003982). Prevents lemma and palea elongation as well as grain growth (PubMed:28066457). Regulates the transition from spikelet meristem to floral meristem, spikelet meristem determinancy and the floral organ development (PubMed:17144896). {ECO:0000250|UniProtKB:P47927, ECO:0000269|PubMed:17144896, ECO:0000269|PubMed:22003982, ECO:0000269|PubMed:28066457, ECO:0000305|PubMed:26631749}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G083600.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Target of miR172 microRNA mediated cleavage, particularly during floral organ development. {ECO:0000269|PubMed:20017947, ECO:0000269|PubMed:22003982, ECO:0000305|PubMed:26631749, ECO:0000305|PubMed:28066457}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7269390.0KJ726939.1 Zea mays clone pUT3485 AP2-EREBP transcription factor (EREB121) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002459580.10.0floral homeotic protein APETALA 2 isoform X2
SwissprotQ8H4430.0AP23_ORYSJ; APETALA2-like protein 3
TrEMBLC5XDI60.0C5XDI6_SORBI; Uncharacterized protein
STRINGSb02g007000.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP24483890
Representative plantOGRP4971784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28550.35e-89related to AP2.7
Publications ? help Back to Top
  1. Lee DY,An G
    Two AP2 family genes, supernumerary bract (SNB) and Osindeterminate spikelet 1 (OsIDS1), synergistically control inflorescence architecture and floral meristem establishment in rice.
    Plant J., 2012. 69(3): p. 445-61
    [PMID:22003982]
  2. Wang L, et al.
    Coordinated regulation of vegetative and reproductive branching in rice.
    Proc. Natl. Acad. Sci. U.S.A., 2015. 112(50): p. 15504-9
    [PMID:26631749]
  3. Dai Z,Wang J,Zhu M,Miao X,Shi Z
    OsMADS1 Represses microRNA172 in Elongation of Palea/Lemma Development in Rice.
    Front Plant Sci, 2016. 7: p. 1891
    [PMID:28066457]