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 XP_013594669.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family ARF
Protein Properties Length: 651aa    MW: 71906.4 Da    PI: 7.7272
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013594669.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.1e-24118219199
                     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+  + +
  XP_013594669.1 118 FAKTLTQSDANNGGGFSVPRYCAEMIfprldynAEPPVQ--TILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM--RAE 208
                     89*********************999****985444444..8999*********************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++ l+v+++r+
  XP_013594669.1 209 NGDLCVGIRRA 219
                     8999****997 PP
2Auxin_resp111.86.8e-37276359183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     aa+ a ++ +FevvY+Pras+seF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++vs +dpvrWpnS+Wr+L+
  XP_013594669.1 276 AASLAISGRAFEVVYYPRASSSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVSVSDPVRWPNSPWRLLQ 359
                     567788999*************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.7E-39109223IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.79E-30113221IPR015300DNA-binding pseudobarrel domain
CDDcd100171.02E-22116218No hitNo description
SMARTSM010191.6E-23118220IPR003340B3 DNA binding domain
PfamPF023621.5E-22118219IPR003340B3 DNA binding domain
PROSITE profilePS5086313.394118220IPR003340B3 DNA binding domain
PfamPF065073.7E-31276359IPR010525Auxin response factor
PROSITE profilePS5174516.197565645IPR000270PB1 domain
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: 651 aa     Download sequence    Send to blast
MINVMNPMRS GSEKGLDPQL WHACGGGMVR MPPMNSKVFY FPQGHAENAY DHVDFKNLPI  60
PPMVLCRVLA IKYMADPESD EVFAKLKLIP LKDNDHEYRE GEDSNGLESN NSEKTPSFAK  120
TLTQSDANNG GGFSVPRYCA EMIFPRLDYN AEPPVQTILA KDVHGEVWKF RHIYRGTPRR  180
HLLTTGWSNF VNQKKLVAGD SIVFMRAENG DLCVGIRRAK RGGIGNNGVE YSAGWNPIGG  240
SCGYSSSLLR DDERRSNYSS LADRKGKVTA ESVVEAASLA ISGRAFEVVY YPRASSSEFC  300
VKALDARAAM RIPWCSGMRF KMAFETEDSS RISWFMGTVS AVSVSDPVRW PNSPWRLLQV  360
AWDEPDLLQN VKRVNPWLVE LVSNVHPIVP SFSPPRKKMR LPQHSDYNAR ISVPSFASNP  420
LIRSSPLSSV LDNVPVGLQG ARHNAHQYYG LSSSDLHHYY LNRPHPPPPP PTLTVPPPLG  480
FRNIDSKNEK GFCFLTMGTT PCNDTESKKS HIVLFGKLIL PEEQKGSEKT QISSGGSNQN  540
CVGGSSSDEG SPCSNKAHDG LGLETGHCKV FMESDDVGRT LDLSVLGSYE ELGVKLSDMF  600
GIQKSEMLSS VLYRDASGAV KYPGNEPFSE FLKTARRLTI LSEQGSESVV V
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-76938043388Auxin 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). 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013594669.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794770.0JN979477.1 Brassica rapa subsp. pekinensis auxin response factor 16-1 (ARF16-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013594669.10.0PREDICTED: auxin response factor 16
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLA0A0D3A3870.0A0A0D3A387_BRAOL; Auxin response factor
TrEMBLA0A3P6FSF70.0A0A3P6FSF7_BRAOL; Auxin response factor
STRINGBo1g014600.10.0(Brassica oleracea)
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. 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]