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_32147_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: 327aa    MW: 35921.7 Da    PI: 8.8985
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_32147_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18.1e-2459160199
                     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_32147_f_1  59 FAKTLTQSDANNGGGFSVPRYCAETIfprldytADPPVQ--TVVAKDVHGEIWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFLRA--Q 149
                     89****************************997556555..8************************************************43..6 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  Neem_32147_f_1 150 NGDLCVGIRRA 160
                     7778****996 PP

2Auxin_resp113.42.2e-37237320183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     aa  a+++++FevvY+Prast+eF+vk++ v++a++v++  GmRfkmafetedss++++ +Gt+++ + +dp+rWp+S+Wr+L+
  Neem_32147_f_1 237 AAALAANGKPFEVVYYPRASTPEFCVKASAVRAAMRVHWHCGMRFKMAFETEDSSRISWfMGTISSAQVADPIRWPKSPWRLLQ 320
                     678899****************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-2952165IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.4E-3852168IPR015300DNA-binding pseudobarrel domain
CDDcd100173.74E-2258159No hitNo description
PROSITE profilePS5086312.88759161IPR003340B3 DNA binding domain
PfamPF023625.7E-2259160IPR003340B3 DNA binding domain
SMARTSM010193.6E-2259161IPR003340B3 DNA binding domain
PfamPF065074.0E-33237320IPR010525Auxin 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: 327 aa     Download sequence    Send to blast
PLILCRATSL KFLADSETDE VYAKIRLVPI PATEIDFEDN DLSLNSAGSD AESDKPASFA  60
KTLTQSDANN GGGFSVPRYC AETIFPRLDY TADPPVQTVV AKDVHGEIWK FRHIYRGTPR  120
RHLLTTGWST FVNQKKLVAG DSIVFLRAQN GDLCVGIRRA KKGIGNANDS LSSGWNSNHG  180
SCVTVNPYGG FSCFLREEEN KMVRNGNMNL NSCGSFNSGG NLRGNGGKVK PEMVLEAAAL  240
AANGKPFEVV YYPRASTPEF CVKASAVRAA MRVHWHCGMR FKMAFETEDS SRISWFMGTI  300
SSAQVADPIR WPKSPWRLLQ GKLNLSN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-513320106367Auxin response factor 5
4ldv_A2e-51332073332Auxin response factor 1
4ldw_A2e-51332073332Auxin response factor 1
4ldw_B2e-51332073332Auxin response factor 1
4ldx_A2e-51332073332Auxin response factor 1
4ldx_B2e-51332073332Auxin 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_006424557.10.0auxin response factor 10
SwissprotQ93YR91e-144ARFP_ARATH; Auxin response factor 16
TrEMBLA0A067G1230.0A0A067G123_CITSI; Auxin response factor (Fragment)
TrEMBLV4SBC20.0V4SBC2_9ROSI; Auxin response factor
STRINGXP_006424557.10.0(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
AT4G30080.11e-146auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. 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]
  8. 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]