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_23307_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: 397aa    MW: 44387.5 Da    PI: 8.2906
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_23307_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.65.6e-24121222199
                     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_23307_f_1 121 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVFL--RAE 211
                     89****************************996555555..89***********************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  Neem_23307_f_1 212 NGDLCVGIRRA 222
                     8999****997 PP

2Auxin_resp113.61.8e-37291374183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     aa+ a+++++Fev+Y+Prast+eF+vk++ v++al+++++ GmRfkmafetedss++++ +Gt+++v+ +dp+ Wp+S+Wr+L+
  Neem_23307_f_1 291 AATLAANRQPFEVIYYPRASTPEFCVKASMVRAALQIRWCSGMRFKMAFETEDSSRISWfMGTISSVQVSDPLYWPDSPWRLLQ 374
                     68899*****************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.84E-30110224IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.4E-38112224IPR015300DNA-binding pseudobarrel domain
CDDcd100173.25E-21120221No hitNo description
PfamPF023623.5E-22121222IPR003340B3 DNA binding domain
PROSITE profilePS5086313.112121223IPR003340B3 DNA binding domain
SMARTSM010191.7E-21121223IPR003340B3 DNA binding domain
PfamPF065072.1E-32291374IPR010525Auxin 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 397 aa     Download sequence    Send to blast
MITFMDSKEK LKEVEKCLDS QLWHACAGGM VQMPPVNSKV FYFPQGHAEH ACGPVDFRSC  60
QRIPPYVLCR VSAIKFMADP ETDEVYAKIN LIPVSNNEPD FDDDGIVGIR NTESQDKPAS  120
FAKTLTQSDA NNGGGFSVPR YCAETIFPRL DYSADPPVQT ILAKDVHGET WKFRHIYRGT  180
PRRHLLTTGW STFVNHKKLV AGDSIVFLRA ENGDLCVGIR RAKRGIGGGP EVSSGWNGNC  240
VSPYGGFSAF LREDDSKLMR NGNGNVNGSS SNMGTNLMGK GKVRPESVIE AATLAANRQP  300
FEVIYYPRAS TPEFCVKASM VRAALQIRWC SGMRFKMAFE TEDSSRISWF MGTISSVQVS  360
DPLYWPDSPW RLLQIHCKWF TLSFVNKWFG REDGRNC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-76337532368Auxin 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).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006481465.10.0auxin response factor 18-like
RefseqXP_024955951.10.0auxin response factor 18-like
SwissprotQ653H71e-179ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A067DQ580.0A0A067DQ58_CITSI; Auxin response factor
TrEMBLA0A067DQJ10.0A0A067DQJ1_CITSI; Auxin response factor
STRINGXP_006481465.10.0(Citrus sinensis)
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
AT4G30080.11e-164auxin 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]