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 KN539440.1_FGP006
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family ARF
Protein Properties Length: 945aa    MW: 104044 Da    PI: 7.5392
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539440.1_FGP006genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.78e-22149269199
                        EEEE-..-HHHHTT-EE--HHH.HTT..........................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHH CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..........................ggkkeesktltledesgrsWevkliyrkksgryvltkGWk 66 
                        f+k+lt sd++++g +++ +++a+e+                          +  ++ +++l+ +d++g +W++++i+r++++r++l++GW+
  KN539440.1_FGP006 149 FCKTLTASDTSTHGGFSVLRRHADEClpplysffdrlivampltslldqdmsQ--HPPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWS 238
                        99***********************************************9544..445569******************************* PP

                        HHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                 B3  67 eFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                         Fv+a++L +gD ++F   + +++el+v+v+r+
  KN539440.1_FGP006 239 VFVSAKRLVAGDAFIFL--RGENGELRVGVRRA 269
                        *****************..449999*****996 PP
2Auxin_resp111.96.1e-37294376183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++t+++F+v+Y+Pr+s+seFvv+++ +e++lk++ s+GmRfkm fe+e+++e+r++Gt+vgv d+dp+ W +SkWrsLk
  KN539440.1_FGP006 294 AWHAVNTGTMFTVYYKPRTSPSEFVVPRDLYEESLKRNHSIGMRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLK 376
                        89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.67E-36142297IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.8E-39142283IPR015300DNA-binding pseudobarrel domain
CDDcd100173.03E-19147268No hitNo description
SMARTSM010194.3E-21149270IPR003340B3 DNA binding domain
PfamPF023623.9E-20149269IPR003340B3 DNA binding domain
PROSITE profilePS5086311.138207270IPR003340B3 DNA binding domain
PfamPF065073.8E-34294376IPR010525Auxin response factor
PfamPF023096.1E-10750836IPR033389AUX/IAA domain
PROSITE profilePS5174521.372752836IPR000270PB1 domain
SuperFamilySSF542775.89E-11757828No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 945 aa     Download sequence    Send to blast
MAAAATAAAS PVEGLTGGGG GGGGGGVDGL FVELWRACAG PLVTVPAVGE RVFYLPQGHI  60
EQVEASTNQV AEQQGAPLYN LPWKIPCKVM NVELKAEPDT DEVYAQLTLL PEKQQDGNGS  120
GNGNVSKNKV EEEEVVPPAA TERPRVHSFC KTLTASDTST HGGFSVLRRH ADECLPPLYS  180
FFDRLIVAMP LTSLLDQDMS QHPPTQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF  240
VSAKRLVAGD AFIFLRGENG ELRVGVRRAM RQQANIPSSV ISSHSMHLGV LATAWHAVNT  300
GTMFTVYYKP RTSPSEFVVP RDLYEESLKR NHSIGMRFKM TFEGEEAAEQ RFTGTIVGVG  360
DSDPSGWADS KWRSLKVRWD EAASVPRPDR VSPWQIEPAN SPSPVNPLPA PRTKRARPNV  420
LASSPDLSAV NKEVASKVMA NSQQNGLPRA FHSQENMNLR SRFGDSNELN TSQKLTMWSS  480
GSNQEKNNAS VQRELGSQSW MQMRRPDGSS EILSGFQPLK DTRNPLSSFP SQISGNCSNT  540
WNTINVHYPE QNANHNMYPG TWSLMPPNTG FGVNQQNYLM TPDITLPQRS LNAKFGGNGA  600
FTSLRAHGID QRSSGWLGHI EPSSHIDDAS SSLIKPQPLV IDHNVQKAKG SSCMLFGISL  660
DSPAKPELLI SPPSVAFDGK LQQDALEEDE CSDPSKIVKP LDGAQHDSAT EKHQSCPDGT  720
KNIQSKQQNG SSRSCKKLYC LCNIVVPFID KLSLSQVHKQ GIALGRSIDL TKFTCYDELI  780
AELDQMFDFN GELNSSSKNW MVVYTDNEGD MMLVGDDPWN EFCNMVHKIF IYMREEVQKM  840
NPGALNSRSF VVCKNRRRHI HGRKESFRGV VVVAGALYVS GKPRSTPFVD GACPGISCPL  900
FVFDKFWVCF VEVLSYCMIC PVVVKGAEAK LLRPVRLLAC ALPPP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldx_A1e-163204039359Auxin response factor 1
4ldx_B1e-163204039359Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539440.1_FGP006
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0670610.0AK067061.1 Oryza sativa Japonica Group cDNA clone:J013091D19, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620411.10.0auxin response factor 24 isoform X1
RefseqXP_015620412.10.0auxin response factor 24 isoform X1
SwissprotQ2QQX60.0ARFX_ORYSJ; Auxin response factor 24
TrEMBLA0A0E0JA990.0A0A0E0JA99_ORYNI; Auxin response factor
STRINGONIVA12G12070.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.40.0auxin response factor 2
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Li G, et al.
    Rice actin-binding protein RMD is a key link in the auxin-actin regulatory loop that controls cell growth.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(28): p. 10377-82
    [PMID:24982173]