PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Pp3c14_16990V3.15.p

Organism

Physcomitrella patens

Taxonomic ID

3218

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella

Family

ARF

Protein Properties

Length: 934aa MW: 104372 Da PI: 8.2262

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pp3c14_16990V3.15.p	genome	COSMOSS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	79.7	2.9e-25	184	285	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+lt sd++++g +++p++ ae+ ++++++ +l+ +d++ ++W +++iyr++++r++lt+GW+ Fv+a++L++gD v+F+ Pp3c14_16990V3.15.p 184 FCKTLTASDTSTHGGFSIPRRAAEKVfppldyaQIPPAQ--ELKARDLHDQEWHFRHIYRGQPRRHLLTTGWSVFVSAKRLQAGDAVLFT 271 99***************************97766665..8******************************************** PP E-SSSEE..EEEEE-S CS B3 84 ldgrsefelvvkvfrk 99 ++++++l ++++r+ Pp3c14_16990V3.15.p 272 --RDNKGQLQLGIRRQ 285 ..5689999**997 PP
2	Auxin_resp	115.2	5.9e-38	312	393	3	83
Auxin_resp 3 haastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aa+t+s F+++YnPr+s+seFv++v+k++ka+ +vsvGmRf+m fete+ss rr++Gt++g+ dldp+rWpnS+WrsLk Pp3c14_16990V3.15.p 312 YAAATSSRFTIFYNPRQSPSEFVIPVAKYQKAIChLQVSVGMRFRMVFETEESSVRRYMGTITGMGDLDPIRWPNSHWRSLK 393 6899**************************9868******************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	4.84E-47	173	311	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.1E-42	177	299	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.41E-23	183	284	No hit	No description
Pfam	PF02362	4.2E-23	184	285	IPR003340	B3 DNA binding domain
SMART	SM01019	1.6E-23	184	286	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.07	184	286	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.2E-33	312	393	IPR010525	Auxin response factor
PROSITE profile	PS51745	25.301	798	891	IPR000270	PB1 domain
SuperFamily	SSF54277	1.37E-6	814	877	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 934 aa Download sequence Send to blast
MDVSGEEDHS MCLTRSLSPG FLSDCSRFAK WRWKYGWRRW NVGYRLFMYL CNERLPSVGP 60 SVGSMAQPAE KVEKRSLNSE LWHACAGPLV LLPPVGSRVV YFPQGHTEQV AASMQKEVDA 120 HIPNYPNLPS RLVCLLDNVT LHADIETDEV YAQMTLIPVP PTNEKDAHMS PDIEMRSRQP 180 TEYFCKTLTA SDTSTHGGFS IPRRAAEKVF PPLDYAQIPP AQELKARDLH DQEWHFRHIY 240 RGQPRRHLLT TGWSVFVSAK RLQAGDAVLF TRDNKGQLQL GIRRQNRQQR VMPSSVLSSD 300 SMHIGVLAAA NYAAATSSRF TIFYNPRQSP SEFVIPVAKY QKAICHLQVS VGMRFRMVFE 360 TEESSVRRYM GTITGMGDLD PIRWPNSHWR SLKVGWDEST AGERKKRVSL WDIEPLTFPY 420 VLCPQPLAFR AKRPRGGRDE ETDSMLKKSS FWSGENSTDA LGRLTFRTPS LDSWMRPKQP 480 GLPMQENEHY RALEAAALEE IRTTSTAKNP MSRVQSSIPS SQMQFQPPHV LRQSSQHGEL 540 HMPEASGPLL QLSSSRPQSP FEVGINMPQC SGYSEGKIHM ASSLSASESF PLHSMLGRTH 600 LGCDTVQVTH VIRPGKSAQQ NLSGAAIHGS SAVVRDPQVS PSWYPPNRDL NQYDVSVRMN 660 QLDTSPTSRN PGSFTFPQQG EGIGQSNLAA LPAPTSSFMY RESGQAQDLV QSDRRLLFGV 720 SIEQQPLGDS HSVTSRHPQT FVKNKDAQSR FPGNIMLQGS YCPSTTADIP TVGGVVLDKI 780 GVFQRCAPWS IMSPAPMRTF TKVHKLGSVG RSIDVQKFQN YSELRAELAR LFNLEGLLED 840 PQTSGWQLVF VDNENDILLV GDDLWEEFVS CVRSIKILSP NEILRMSREQ LEILNPVPMQ 900 LRPTCSNSED ARTQLSPANA STMSLEHGHS GAG*

Sequence ? help Back to Top

Protein Sequence Length: 934 aa Download sequence Send to blast

MDVSGEEDHS MCLTRSLSPG FLSDCSRFAK WRWKYGWRRW NVGYRLFMYL CNERLPSVGP  60
SVGSMAQPAE KVEKRSLNSE LWHACAGPLV LLPPVGSRVV YFPQGHTEQV AASMQKEVDA  120
HIPNYPNLPS RLVCLLDNVT LHADIETDEV YAQMTLIPVP PTNEKDAHMS PDIEMRSRQP  180
TEYFCKTLTA SDTSTHGGFS IPRRAAEKVF PPLDYAQIPP AQELKARDLH DQEWHFRHIY  240
RGQPRRHLLT TGWSVFVSAK RLQAGDAVLF TRDNKGQLQL GIRRQNRQQR VMPSSVLSSD  300
SMHIGVLAAA NYAAATSSRF TIFYNPRQSP SEFVIPVAKY QKAICHLQVS VGMRFRMVFE  360
TEESSVRRYM GTITGMGDLD PIRWPNSHWR SLKVGWDEST AGERKKRVSL WDIEPLTFPY  420
VLCPQPLAFR AKRPRGGRDE ETDSMLKKSS FWSGENSTDA LGRLTFRTPS LDSWMRPKQP  480
GLPMQENEHY RALEAAALEE IRTTSTAKNP MSRVQSSIPS SQMQFQPPHV LRQSSQHGEL  540
HMPEASGPLL QLSSSRPQSP FEVGINMPQC SGYSEGKIHM ASSLSASESF PLHSMLGRTH  600
LGCDTVQVTH VIRPGKSAQQ NLSGAAIHGS SAVVRDPQVS PSWYPPNRDL NQYDVSVRMN  660
QLDTSPTSRN PGSFTFPQQG EGIGQSNLAA LPAPTSSFMY RESGQAQDLV QSDRRLLFGV  720
SIEQQPLGDS HSVTSRHPQT FVKNKDAQSR FPGNIMLQGS YCPSTTADIP TVGGVVLDKI  780
GVFQRCAPWS IMSPAPMRTF TKVHKLGSVG RSIDVQKFQN YSELRAELAR LFNLEGLLED  840
PQTSGWQLVF VDNENDILLV GDDLWEEFVS CVRSIKILSP NEILRMSREQ LEILNPVPMQ  900
LRPTCSNSED ARTQLSPANA STMSLEHGHS GAG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-158	74	414	48	388	Auxin response factor 5
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in sepals at stages 11, 12 and 13 of flower development. Highly expressed in petals at stages 9-10, decreases at stage 11 and disappears after flower stage 12. In anthers, expressed at stage 11 in the tapetum, disappears early in stage 12 when the tapetum degrades and reappears throughout the anther late in stage 12 to persist at least until stage 13. In stamen filaments, expressed at stages 12 to 13, especially near the apical end of the filament. Expressed throughout the gynoecium at early stages up to stage 12, especially strongly in ovules. Expression in gynoecium decreases late in stage 12, but persists through stage 13, especially near the apical end including the style. {ECO:0000269\|PubMed:16107481}.
Uniprot	TISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269\|PubMed:10476078}.

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF8. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16107481}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR167. {ECO:0000269\|PubMed:17021043}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024395055.1	0.0	auxin response factor 19-like isoform X3
Swissprot	Q9ZTX8	0.0	ARFF_ARATH; Auxin response factor 6
TrEMBL	A0A2K1J4P6	0.0	A0A2K1J4P6_PHYPA; Auxin response factor
STRING	PP1S48_147V6.1	0.0	(Physcomitrella patens)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30330.1	0.0	auxin response factor 6

Link Out ? help Back to Top
Phytozome	Pp3c14_16990V3.15.p

Publications ? help Back to Top
Liu N, et al. Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J. Exp. Bot., 2014. 65(9): p. 2507-20 [PMID:24723401] Oh E, et al. Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl. Elife, 2015. [PMID:24867218] Minato N, et al. The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways. Sci Rep, 2014. 4: p. 7399 [PMID:25492247] Ortega-Amaro MA, et al. Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance. Front Plant Sci, 2014. 5: p. 782 [PMID:25653657] Asahina M,Satoh S Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues. J. Plant Res., 2015. 128(3): p. 381-8 [PMID:25736731] Batista VG,Pinheiro MP,Melo Filho PA,Santos RC,Lima LM Temporal and tissue expression of genes involved in buds of earliness cotton cultivar. Genet. Mol. Res., 2015. 14(3): p. 7386-94 [PMID:26214417] Li P, et al. Ca(2+) -regulated and diurnal rhythm-regulated Na(+) /Ca(2+) exchanger AtNCL affects flowering time and auxin signalling in Arabidopsis. Plant Cell Environ., 2016. 39(2): p. 377-92 [PMID:26296956] Barik S, et al. Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species. Sci Rep, 2015. 5: p. 14611 [PMID:26459056] Luo S, et al. Constitutive Expression of OsIAA9 Affects Starch Granules Accumulation and Root Gravitropic Response in Arabidopsis. Front Plant Sci, 2015. 6: p. 1156 [PMID:26734051] 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] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Liu Z, et al. ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis. Plant Cell Physiol., 2018. 59(1): p. 179-189 [PMID:29145642]