PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PSME_00035612-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: 788aa    MW: 85938.2 Da    PI: 6.9215
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00035612-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.23.1e-23138239199
                       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++++iyr++++r++lt+GW+ Fv++++L +gD++vF   +
  PSME_00035612-RA 138 FAKTLTQSDANNGGGFSVPRYCAETIfprldysSDPPVQ--TVLAKDVHGEVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFL--R 226
                       89****************************995444444..8999*********************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       + ++el+v+++r+
  PSME_00035612-RA 227 SLNGELCVGIRRS 239
                       478999****997 PP
2Auxin_resp110.71.5e-36316398283
        Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                       a+ a+t+++F+vvY+Prast+eF+vk++ v +al++k+++GmRfkmafetedss++++ +Gt++ v+++dp++Wp S+Wr+L+
  PSME_00035612-RA 316 ATLAATGQPFDVVYYPRASTPEFCVKANAVDTALRMKWAAGMRFKMAFETEDSSRISWfMGTISLVQCADPIHWPTSPWRLLQ 398
                       57899****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.6E-37128245IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.93E-29133248IPR015300DNA-binding pseudobarrel domain
CDDcd100172.65E-21137238No hitNo description
PROSITE profilePS5086312.816138240IPR003340B3 DNA binding domain
PfamPF023622.4E-21138239IPR003340B3 DNA binding domain
SMARTSM010191.9E-21138240IPR003340B3 DNA binding domain
PfamPF065071.6E-31316398IPR010525Auxin response factor
PROSITE profilePS5174517.061702782IPR000270PB1 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: 788 aa     Download sequence    Send to blast
MPVPCTMNGP RITAMDSAHG YGLVMQRGED DGSPGLDSQL WHACAGGMVQ MPSMNARVYY  60
FPQGQAEHSA TNVEFPASLR ARPAILCRVL NVKFMADTET DEVYARIRLV PIKPNEAAME  120
DGSEENDNAA ANEKPVSFAK TLTQSDANNG GGFSVPRYCA ETIFPRLDYS SDPPVQTVLA  180
KDVHGEVWKF RHIYRGTPRR HLLTTGWSTF VNQKKLVAGD SIVFLRSLNG ELCVGIRRST  240
RSTGGGDSSA WHLAGQQQQG SCMSPYRSSS RWEVKGGDNF SAAFFGGGDK ASANGNSNGF  300
ARNKGKVSTK SVIESATLAA TGQPFDVVYY PRASTPEFCV KANAVDTALR MKWAAGMRFK  360
MAFETEDSSR ISWFMGTISL VQCADPIHWP TSPWRLLQVT WDEPDLLQNV KRVSPWLVEV  420
VSNVPPIQLS PFTLPKKKLR VSQHPEFQFE GQGIMGGIQM ATLTNNMLGQ INPWHGFTEN  480
VPAGMQGARH GHIYGISLSD FQPNKLQSGL SLDSFHQLDQ GAFLSTPVST ELNIGCFSQV  540
ERSSVQDNLS CVLTMGNSSQ SEQKTTNGRS SSSTTKSAPF LLFGKPIHTE QSPKSEQQQQ  600
SGVSSSDGPG LHVVNDSGSP GLTSNSSTDG NPEVVDRLQR AMTGRSDISK LSENYSLRLH  660
QGESLDSSVN NGGSSLAWFK DRQVSLLTLE NGSGGKTSED GILHCKAFLE SEDVGRTLDL  720
SLFSSYEQLH NRLAKMFGIE DSDLSNRVLY KDAAGVVRHT GDQPYGDFMK TVKRLTILSD  780
SSSDNMGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A8e-723341916353Auxin response factor 1
4ldw_A8e-723341916353Auxin response factor 1
4ldw_B8e-723341916353Auxin 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
GenBankBT1085450.0BT108545.1 Picea glauca clone GQ03123_F06 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010253698.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A2P1NR350.0A0A2P1NR35_9SPER; Auxin response factor
STRINGXP_010253698.10.0(Nelumbo nucifera)
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]