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.001G075700.1.p
Common NameSb01g006830, SORBIDRAFT_01g006830
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: 649aa    MW: 67855 Da    PI: 7.0558
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G075700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP248.32.5e-15298357155
                   AP2   1 sgykGVrwdkkrgrWvAeIrd.pse.ng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s+y+GV++++++gr++A+++d  +   g  ++ ++++lg ++ +e+Aa+a++ a++k++g
  Sobic.001G075700.1.p 298 SKYRGVTRHRWTGRYEAHLWDnSCRkEGqaRKgRQVYLGGYDMEEKAARAYDLAALKYWG 357
                           89*******************655554478446*************************98 PP
2AP245.71.6e-14400451155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s y+GV+++++ grW A+I  +s    +k  +lg+f   eeAa+a++ a+ k++g
  Sobic.001G075700.1.p 400 SIYRGVTRHHQHGRWQARIGRVSG---NKDLYLGTFTNQEEAAEAYDVAAIKFRG 451
                           57****************999754...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.93E-20298366No hitNo description
PfamPF008473.9E-12298357IPR001471AP2/ERF domain
SuperFamilySSF541711.57E-16298366IPR016177DNA-binding domain
PROSITE profilePS5103219.348299365IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.109.5E-16299366IPR001471AP2/ERF domain
SMARTSM003802.3E-28299371IPR001471AP2/ERF domain
PRINTSPR003673.8E-6300311IPR001471AP2/ERF domain
SuperFamilySSF541714.18E-17400460IPR016177DNA-binding domain
PfamPF008473.8E-9400451IPR001471AP2/ERF domain
CDDcd000184.00E-22400461No hitNo description
Gene3DG3DSA:3.30.730.101.9E-17401459IPR001471AP2/ERF domain
SMARTSM003805.3E-32401465IPR001471AP2/ERF domain
PROSITE profilePS5103218.505401459IPR001471AP2/ERF domain
PRINTSPR003673.8E-6441461IPR001471AP2/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: 649 aa     Download sequence    Send to blast
MTSNSSQNIS SCSTGGSDAA VGSSWLGFSL SPHMAATMDG GAADGSRGVP GQQPHGGLCY  60
PPVVCSSPAP FGYALGGGGQ DCPANGGGGF YPGLSSMPLN SDGSLCIVEA LHRSEQERHG  120
VMVSPKLEDF LGASTAMALS LDSSSFYYGG GHGHHAHGDG HGHDQGGYLQ PLQCAVIPSS  180
GGHDVYGGHS HLVDQQSAVA MAESWFSARG GGYDVNGGGA GDIVPLQGHT HPLALSMSSG  240
TGSQSSSITM QVGAHADAVT EYVATDGSKK RGGGGGNAGQ KQAVVHRKSI DTFGQRTSKY  300
RGVTRHRWTG RYEAHLWDNS CRKEGQARKG RQVYLGGYDM EEKAARAYDL AALKYWGKST  360
HVNFPVEDYR EELEEMENMT RQEYVAHLRR KSSGFSRGAS IYRGVTRHHQ HGRWQARIGR  420
VSGNKDLYLG TFTNQEEAAE AYDVAAIKFR GLSAVTNFDI TRYDVEKIME SNTLLPGDQV  480
RRKMDGQAAS AVSEADAVAS ATAALVQAGG RCVADTWKIQ AAALPAVARG GGGGHEQQQQ  540
HQDLLSSEAF SLLHDILSVD AAGTGSGSAN AHMSNSSSLA PSVSNSREQS PDRGSGGLAM  600
FFAKPAAAVP RLACPLPLGS WVSPSAVSSA RPGVSIAHLP MFAAWTDA*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed at the base of the stem. Expressed in stems. Expressed a low levels in crown roots and seeds (PubMed:21807632). Expressed in the stem region where adventitious (crown) root initiation occurs (PubMed:21481033). {ECO:0000269|PubMed:21481033, ECO:0000269|PubMed:21807632}.
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of adventitious (crown) root formation by promoting its initiation. Promotes adventitious root initiation through repression of cytokinin signaling by positively regulating the two-component response regulator RR1. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1. {ECO:0000269|PubMed:21481033}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G075700.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin. {ECO:0000269|PubMed:21481033}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021319373.10.0AP2-like ethylene-responsive transcription factor ANT
SwissprotQ84Z021e-164CRL5_ORYSJ; AP2-like ethylene-responsive transcription factor CRL5
TrEMBLC5WZ800.0C5WZ80_SORBI; Uncharacterized protein
STRINGSb01g006830.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP94838133
Representative plantOGRP11217209
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37750.11e-123AP2 family protein
Publications ? help Back to Top
  1. Kitomi Y, et al.
    The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.
    Plant J., 2011. 67(3): p. 472-84
    [PMID:21481033]
  2. Li P,Xue H
    Structural characterization and expression pattern analysis of the rice PLT gene family.
    Acta Biochim. Biophys. Sin. (Shanghai), 2011. 43(9): p. 688-97
    [PMID:21807632]