PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Niben101Scf05633g00012.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family ARF
Protein Properties Length: 823aa    MW: 90681.4 Da    PI: 6.2402
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf05633g00012.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B348.81.3e-15118193171
                               EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHH CS
                        B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvka 71 
                               f+k+ltpsd+++ g +++p+ +a+++        +++ +   l ++d +g +We+++iyr++++r++lt+GW++Fv+ 
  Niben101Scf05633g00012.1 118 FVKILTPSDANNGGGFSVPRFCADSIfprlnfvAEPPVQ--NLYIRDIHGCVWEFRHIYRGTPRRHLLTTGWSKFVNK 193
                               89*********************999*****98666666..6**********************************86 PP
2B374.31.4e-23326428199
                               EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                        B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                               f+k+ltpsd+++ g +++p+ +a+++        +++ +   l ++d +g +We+++iyr++++r++lt+GW++Fv++++L +gD
  Niben101Scf05633g00012.1 326 FVKILTPSDANNGGGFSVPRFCADSIfprlnfvAEPPVQ--NLYIRDIHGCVWEFRHIYRGTPRRHLLTTGWSKFVNSKKLVAGD 408
                               89*********************999*****98666666..6******************************************* PP

                               EEEEEE-SSSEE..EEEEE-S CS
                        B3  79 fvvFkldgrsefelvvkvfrk 99 
                               + vF ++  +++el+v+v+r+
  Niben101Scf05633g00012.1 409 SAVFARKT-NTGELYVGVRRA 428
                               *****544.9999******97 PP
3Auxin_resp83.25.8e-28472555183
                Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                               a++ a+ +++Fev  +Pra++++Fvv++e ve++ +v ++vGmR+kma+etedss++ + +Gtv++v+  ++  W++S+Wr+L+
  Niben101Scf05633g00012.1 472 AVEMAARGMAFEVSCYPRAGWADFVVRAEAVEASSTVFWTVGMRVKMAVETEDSSRTACfQGTVSSVNLPQSGPWRGSPWRMLQ 555
                               6788999***************************************************99**********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.45E-22105195IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.1E-24109193IPR015300DNA-binding pseudobarrel domain
CDDcd100171.34E-14117194No hitNo description
PfamPF023621.8E-13118193IPR003340B3 DNA binding domain
PROSITE profilePS508636.823118192IPR003340B3 DNA binding domain
SMARTSM010192.6E-4118207IPR003340B3 DNA binding domain
SuperFamilySSF1019361.44E-28313433IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-32317431IPR015300DNA-binding pseudobarrel domain
CDDcd100172.83E-21325427No hitNo description
PfamPF023621.7E-21326428IPR003340B3 DNA binding domain
PROSITE profilePS5086312.887326429IPR003340B3 DNA binding domain
SMARTSM010191.5E-19326429IPR003340B3 DNA binding domain
PfamPF065072.1E-25472555IPR010525Auxin response factor
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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 823 aa     Download sequence    Send to blast
MPPSTTAAPP VSNDVDPTVW KAIAGNSVQI PTVGTRVYYF PQGHAEHANC GSPIFISSPI  60
PPFILCRVLS VRFLADSVTD EAYAKIFLLP INQSEDNNNV AMNMNGDVED AENEVVSFVK  120
ILTPSDANNG GGFSVPRFCA DSIFPRLNFV AEPPVQNLYI RDIHGCVWEF RHIYRGTPRR  180
HLLTTGWSKF VNKYTHAHHI FSALRRSPMP PSTTAAPPVS NDVDPTVWKA IAGNSVQIPT  240
VGTRVYYFPQ GHAEHANCGS PIFISSPIPP FILCRVLSVR FLADSVTDEA YAKIFLLPIN  300
QSEDNNNVAM NMNGDVEDAE NEVVSFVKIL TPSDANNGGG FSVPRFCADS IFPRLNFVAE  360
PPVQNLYIRD IHGCVWEFRH IYRGTPRRHL LTTGWSKFVN SKKLVAGDSA VFARKTNTGE  420
LYVGVRRATR GNDICEGWNS TVLRSTEQTS TGGEVRWRTG QGRVATEAMV EAVEMAARGM  480
AFEVSCYPRA GWADFVVRAE AVEASSTVFW TVGMRVKMAV ETEDSSRTAC FQGTVSSVNL  540
PQSGPWRGSP WRMLQITWDE PEVLQYAKRV NPWQVECILP TSQLHSGFPP SKKIKLPNGL  600
LPDGDEEFFF PMTGLSNPLI GLCSPSLGNY TSFPAGMQGA RQNQICVSSL SNVKSNNNLG  660
LGTDNSLDEE FKPKLESVST KLNIGSSYSD NFSPDSQSSV HFWDNELVTK PGSSSLTKVC  720
VNSFQLFGKV IHVEPVEGGF DGFGCSENDS IEAFKQIDGA VKSNISLSKP YIELFDSLDV  780
QHQRASAVEA CIQGRSGFQQ WFHCGFFLSS EIQRLQSNML DVK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-651958323360Auxin response factor 1
4ldy_B1e-651958323360Auxin 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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019233424.10.0PREDICTED: auxin response factor 17
SwissprotQ84WU61e-169ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A1J6KFA80.0A0A1J6KFA8_NICAT; Auxin response factor
STRINGXP_009791106.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA95601924
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.11e-160auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]