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 PSME_00050564-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family ARF
Protein Properties Length: 683aa    MW: 74498.6 Da    PI: 8.6305
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00050564-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.45.6e-23133234199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f k+lt+sd+++ g +++p+ +ae++       + ++ +  t+  +d +g++W++++i+r++++r++lt+GW+ Fv++++L +gD +vF   +
  PSME_00050564-RA 133 FAKTLTQSDANNGGGFSVPRYCAETIfprldysNDPPVQ--TVLARDVHGEVWKFRHIFRGTPRRHLLTTGWSTFVNQKKLVAGDAIVFL--R 221
                       89*****************************95545444..89***********************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       + ++el+v+v+r+
  PSME_00050564-RA 222 SATGELCVGVRRS 234
                       479999****997 PP
2Auxin_resp106.43.3e-35307390183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                       aa++a+++++Fe vY+Prast+eF+vkv++v++al+ ++ +GmRfkmafetedss++++ +Gt+++v+ +dpv Wp+S+Wr+L+
  PSME_00050564-RA 307 AATRAAMGQPFEAVYYPRASTPEFCVKVQSVNAALSLQWVAGMRFKMAFETEDSSRISWfMGTISSVQYADPVLWPKSPWRLLQ 390
                       68899*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-28125236IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.3E-36128247IPR015300DNA-binding pseudobarrel domain
CDDcd100171.18E-20132233No hitNo description
SMARTSM010199.8E-20133235IPR003340B3 DNA binding domain
PROSITE profilePS5086312.788133235IPR003340B3 DNA binding domain
PfamPF023621.0E-20133234IPR003340B3 DNA binding domain
PfamPF065079.5E-31307390IPR010525Auxin 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: 683 aa     Download sequence    Send to blast
MERRMKKGED GGRGRGQGGP GLDSQLWHAC AGGMVEMPLV GSKVYYFPQG HAEHASTPPD  60
FPPDFNIAPS VLCTVLSIAY LADPDTDEVY AHIRLQPDNG RMRGGALGDD NDNDSSTLSP  120
PPPTTSGEKP VSFAKTLTQS DANNGGGFSV PRYCAETIFP RLDYSNDPPV QTVLARDVHG  180
EVWKFRHIFR GTPRRHLLTT GWSTFVNQKK LVAGDAIVFL RSATGELCVG VRRSTRGGGG  240
FASTAAESGP WHWPGSSPYR TAASALKGGP FDNFSDFLDS SNRLMRSNNS GYARNRGKVA  300
AKSVVEAATR AAMGQPFEAV YYPRASTPEF CVKVQSVNAA LSLQWVAGMR FKMAFETEDS  360
SRISWFMGTI SSVQYADPVL WPKSPWRLLQ VTWDEPELLQ SVKRVSPWMV EVVSNMPAIQ  420
MTPFMLPKKK LRVTQPPEFH LEGQRGIMGL QMATLTNNVL GQINPWHSVS ENVPAGMQGA  480
RHDTIYGMSF SDIHQNNIQS RLFLDNVKHQ EPVAMSTRVS TELNIGSVSQ LERSEVHNSL  540
SCLLTMGNSS QSEHKISRCT SSSTSKSTPF LLFGKPIHTD QSPRSQQQQQ SAVSSADGLG  600
FQSFNDTGSP GLTNNSSTDV NQEAEDRVQK LIKDKAGGSK ISDNSSITHQ NGNSLDAAGT  660
NGAKSLQRFK HETGNLLQLL KAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A6e-76124119353Auxin response factor 1
4ldy_B6e-76124119353Auxin 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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1198320.0BT119832.1 Picea glauca clone GQ04110_M14 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024537658.10.0auxin response factor 16
RefseqXP_024541392.10.0auxin response factor 10
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0D6QZZ40.0A0A0D6QZZ4_ARACU; Auxin response factor
TrEMBLA0A2P1NR350.0A0A2P1NR35_9SPER; Auxin response factor
STRINGEFJ220310.0(Selaginella moellendorffii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.11e-171auxin 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]