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 Neem_17933_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family ARF
Protein Properties Length: 693aa    MW: 75897.4 Da    PI: 6.5549
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_17933_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3758.6e-24126227199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g++W++++iyr++++r++lt+GW++Fv++++L +gD++vF   + +
  Neem_17933_f_1 126 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAEPPVQ--TILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFL--RAE 216
                     89****************************986445444..8999*********************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  Neem_17933_f_1 217 NGDLCVGIRRA 227
                     8999****997 PP

2Auxin_resp115.83.9e-38288371183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     aa+ a+++++FevvY+Prast+eFvvk++ v++a++++++ GmRfkmafetedss++++ +Gt+++v+ +dp+ WpnS+Wr+L+
  Neem_17933_f_1 288 AATFAANGQPFEVVYYPRASTPEFVVKASAVRSAMQIQWCSGMRFKMAFETEDSSRISWfMGTISAVQVADPICWPNSPWRLLQ 371
                     678899****************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.4E-37120232IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.97E-29122226IPR015300DNA-binding pseudobarrel domain
CDDcd100174.05E-22125226No hitNo description
PROSITE profilePS5086313.239126228IPR003340B3 DNA binding domain
SMARTSM010199.0E-23126228IPR003340B3 DNA binding domain
PfamPF023624.4E-22126227IPR003340B3 DNA binding domain
PfamPF065075.9E-33288371IPR010525Auxin response factor
PROSITE profilePS5174520.171607687IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009733Biological Processresponse to auxin
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 693 aa     Download sequence    Send to blast
MIAVMDSAKD SMKKHPTAES CLDSQLWHAC AGSMVQMPPI NSKVFYFPQG HLEHAKGNIE  60
LSNFNIPAMI PCRVTAIKYM ADTETDEVYA KIRLIALNNN GFDDFDDVGF DGNGGSNECS  120
EKPASFAKTL TQSDANNGGG FSVPRYCAET IFPRLDYSAE PPVQTILAKD VHGEVWKFRH  180
IYRGTPRRHL LTTGWSNFVN QKKLVAGDSI VFLRAENGDL CVGIRRAKKG GIGGGSDYSI  240
GWNSGGGNCG FPFGGYSAYM REDENKLPRR HSNTDLRGRV RAESVVEAAT FAANGQPFEV  300
VYYPRASTPE FVVKASAVRS AMQIQWCSGM RFKMAFETED SSRISWFMGT ISAVQVADPI  360
CWPNSPWRLL QVAWDEPDLL QNVKRVSPWL VELVSNIPAI HLSPFSPPRK KLRLPEHPDF  420
SLINPLPMPS FSRNPLMNSS PLRCISDNIP AGIQGARHAQ YGLSSSDLHF NKLQSGLFPL  480
GSQQLENIAR PARIPSSNFL SETGNSDSIS CLLTMGNPTQ SYKDNSEVKT PHILLFGQLI  540
LPQQNSSQSC SGDTIGNSLS DGNPEKTTIS SDGSGSAVHQ NGLLENSSDG GSPWCKDHQK  600
SDLGLETGHC KVFMESEDVG RTLDLSVLGS YEELYGKLAN MFGIGSSEMF SNVLYRDAAG  660
SVKHTGDEPF SEFLKTARRL TILTDSGSDN VGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-801739246388Auxin response factor 5
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006436433.10.0auxin response factor 16
RefseqXP_006485698.10.0auxin response factor 16
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A2H5P2B10.0A0A2H5P2B1_CITUN; Auxin response factor
TrEMBLV4SPI50.0V4SPI5_9ROSI; Auxin response factor
STRINGXP_006485698.10.0(Citrus sinensis)
STRINGXP_006436433.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
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. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]