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 Sobic.001G036800.1.p
Common NameSb01g003400, SORBIDRAFT_01g003400
Organism
Sorghum bicolor
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: 433aa    MW: 47483.6 Da    PI: 7.1787
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G036800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP254.53e-17111160155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s+y+GV++++++grW+++I+d      + k+++lg f+ta  Aa+a+++a+ k++g
  Sobic.001G036800.1.p 111 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 160
                           78*******************......55************************998 PP
2AP242.51.6e-13203253155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpseng...krkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s+y+GV+ +k  grW+A+       g    +k+++lg f+++ eAa+a+++a+++++g
  Sobic.001G036800.1.p 203 SKYRGVTLHK-CGRWEAR---M---GqllGKKYIYLGLFDSEVEAARAYDRAALRFNG 253
                           89********.7******...5...334336**********99***********9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.9E-9111160IPR001471AP2/ERF domain
CDDcd000183.28E-11111167No hitNo description
SuperFamilySSF541711.11E-15111168IPR016177DNA-binding domain
SMARTSM003808.2E-31112174IPR001471AP2/ERF domain
PROSITE profilePS5103217.728112168IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.4E-17112168IPR001471AP2/ERF domain
SuperFamilySSF541714.84E-17203262IPR016177DNA-binding domain
PfamPF008475.0E-9203253IPR001471AP2/ERF domain
CDDcd000182.95E-26203263No hitNo description
SMARTSM003805.2E-33204267IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.6E-16204261IPR001471AP2/ERF domain
PROSITE profilePS5103216.436204261IPR001471AP2/ERF domain
PRINTSPR003671.8E-6205216IPR001471AP2/ERF domain
PRINTSPR003671.8E-6243263IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 433 aa     Download sequence    Send to blast
MVLDLNVASP ADSGTSSSSV LNSANGGFRF GLLGSPVDDD DCSGEMAPGA STGFMTRQLF  60
PSPTPPAEPE PEPPAAPVPV WQPRRAEDLG VAQRPVAPAK KTRRGPRSRS SQYRGVTFYR  120
RTGRWESHIW DCGKQVYLGG FDTAHAAARA YDRAAIKFRG LEADINFSLG DYEDDLKQMR  180
NWTKEEFVHI LRRQSTGFAR GSSKYRGVTL HKCGRWEARM GQLLGKKYIY LGLFDSEVEA  240
ARAYDRAALR FNGREAVTNF EPSSYNAGDN SLPDTETEAI VDRDAIDLDL RISQPNVQDP  300
KRDYTLTSLQ PTCDSPESSN TMASQPMSSS SPWPGYQQNP AVSSHHQHLY SSACHGSFPN  360
HQVQERPMER RPELGAQPFP TWAWQTQGSP HVPLHHSAAS SGFSTAAGAN GGMPLPSHPP  420
APFPTTNPFF FP*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detected in developing branch and spikelet meristems at very early stages of inflorescence formation, and is maintained uniformly in the spikelet meristems until floral organs initiation. Present in some floral organ primordia. {ECO:0000269|PubMed:22003982}.
UniprotTISSUE SPECIFICITY: Highly expressed in developing panicles and in young seedlings (PubMed:20017947, PubMed:22003982). Present at low levels at all developmental stages (PubMed:22003982). {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 SNB, 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). {ECO:0000250|UniProtKB:P47927, ECO:0000269|PubMed:22003982, ECO:0000269|PubMed:28066457, ECO:0000305|PubMed:26631749}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00615PBMTransfer from AT2G28550Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G036800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Target of miR172 microRNA mediated cleavage, particularly during floral organ development. {ECO:0000269|PubMed:22003982, ECO:0000305|PubMed:20017947, ECO:0000305|PubMed:26631749, ECO:0000305|PubMed:28066457}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7278380.0KJ727838.1 Zea mays clone pUT5791 AP2-EREBP transcription factor (EREB11) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002466204.10.0floral homeotic protein APETALA 2
SwissprotQ84TB50.0AP22_ORYSJ; APETALA2-like protein 2
TrEMBLC5WV310.0C5WV31_SORBI; Uncharacterized protein
STRINGSb01g003400.10.0(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
AT2G28550.38e-93related 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]