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 Pp3c17_19900V3.2.p
Common NamePHYPADRAFT_127416
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family ARF
Protein Properties Length: 885aa    MW: 98144 Da    PI: 6.7931
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c17_19900V3.2.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.31.7e-24137238199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++p++ ae+        + ++++  +l+ +d++ ++W +++iyr++++r++lt+GW+ Fv+a++L++gD v+F  
  Pp3c17_19900V3.2.p 137 FCKTLTASDTSTHGGFSIPRRAAEKVfppldytQTPPAQ--ELKARDLHDQEWHFRHIYRGQPRRHLLTTGWSVFVSAKRLQAGDAVLFI- 224
                         99****************************986555544..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++++l ++++r+
  Pp3c17_19900V3.2.p 225 -RDDKGQLQLGIRRQ 238
                         .5578989****997 PP
2Auxin_resp117.41.2e-38263346183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a haa+t+s F+++YnPr+s+seFv++v+k++ka+   +vsvGmRf+m fete+ss rr++Gt++g+ dldp+rWpnS+WrsLk
  Pp3c17_19900V3.2.p 263 ANHAAATSSRFTIFYNPRQSPSEFVIPVAKYQKAICsLQVSVGMRFRMVFETEESSVRRYMGTITGMGDLDPIRWPNSHWRSLK 346
                         679*******************************9769********************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.22E-48127266IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.9E-43130252IPR015300DNA-binding pseudobarrel domain
CDDcd100174.81E-23136237No hitNo description
SMARTSM010192.0E-23137239IPR003340B3 DNA binding domain
PfamPF023622.6E-22137238IPR003340B3 DNA binding domain
PROSITE profilePS5086312.971137239IPR003340B3 DNA binding domain
PfamPF065074.2E-34263346IPR010525Auxin response factor
PROSITE profilePS5174525.292749833IPR000270PB1 domain
SuperFamilySSF542774.66E-8766828No hitNo description
PfamPF023096.9E-6795834IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000006anatomyplant protoplast
PO:0025017anatomyplant spore
PO:0030003anatomyprotonema
PO:0030018anatomygametophore
Sequence ? help Back to Top
Protein Sequence    Length: 885 aa     Download sequence    Send to blast
MYLSSERPPS LGPIMTSMAQ PMEQVERRSL NSELWHACAG PLVSLPPVGS RVVYFPQGHT  60
EQVAASTQKE ADAHIPNYPN LPSRLVCLLD NVTLHADLET DEVYAQMTLI PVLPANEKEA  120
LISPDIGMRS RQPTEYFCKT LTASDTSTHG GFSIPRRAAE KVFPPLDYTQ TPPAQELKAR  180
DLHDQEWHFR HIYRGQPRRH LLTTGWSVFV SAKRLQAGDA VLFIRDDKGQ LQLGIRRQNR  240
QQTVMPSSVL SSDSMHIGVL AAANHAAATS SRFTIFYNPR QSPSEFVIPV AKYQKAICSL  300
QVSVGMRFRM VFETEESSVR RYMGTITGMG DLDPIRWPNS HWRSLKVGWD ESTAGERQRR  360
VSLWEIEPLT TPFLLCPPPV AFRTKRPRGG RDEEIDSTSK KSSFWSGDED TGVLGGLNFR  420
NLSMDSWMRP QQPGLPTQQN EYYRALAAAA LQEFRTPDCS KHPTSRSQPS ISPQMQFRSQ  480
PQMQSGHHGV QHVSEACGPL LQLSSSRPQS PLEVGMNMPQ CSGYSEEDIQ MASSPSASGS  540
YPLHSMLGRT HLGCETGQVG LMMRPTQNAQ QSQSGPILHG GSTIGHEPQV SSSWYPSNRD  600
PNQHDVSARM NQLDTSPTSR VSGSFSLSQQ SEGNGQSGLT GMPVPASSFM FRESGQEQDS  660
VQSDRHLLFG VSIEQQPLGA SNPVASIHSQ SYPKNKDVHN RFSGNNMLQG SYCSSTMPDI  720
STMNGVGLDE NGMCQRGAPW ATMSPAPVRT FTKVHKLGSV GRSIDVQKFQ NYSELRAELA  780
RLFNLDNLLD DPQRTGWQLV FVDNENDTLL VGDDPWEEFV NYVRSIKILS PNEIQQMRQE  840
QLEILNTVPM QQRPTCSNSE DARTQTSPPN TSTLSLEHGH SGPG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1633036751388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.60390.0gametophore| protonema
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024401004.10.0auxin response factor 6-like
SwissprotQ653U30.0ARFQ_ORYSJ; Auxin response factor 17
TrEMBLA0A2K1J4P60.0A0A2K1J4P6_PHYPA; Auxin response factor
STRINGPP1S65_227V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
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. Rensing SA, et al.
    The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants.
    Science, 2008. 319(5859): p. 64-9
    [PMID:18079367]