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

evm.model.supercontig_17.53

Organism

Carica papaya

Taxonomic ID

3649

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica

Family

ARF

Protein Properties

Length: 312aa MW: 34833.6 Da PI: 9.3031

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm.model.supercontig_17.53	genome	ASGPB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	77.5	1.4e-24	127	228	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 f+k+lt sd++++g +++p++ ae+ +++++ ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L evm.model.supercontig_17.53 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQQPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLV 206 99***************************8544444..48************************************ PP TT-EEEEEE-SSSEE..EEEEE-S CS B3 76 egDfvvFkldgrsefelvvkvfrk 99 +gD+v+F ++++ +l+++++r+ evm.model.supercontig_17.53 207 AGDSVLFI--WNEKNQLLLGIRRA 228 ****..8899999**997 PP
2	Auxin_resp	75.5	1.5e-25	253	311	1	58
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserr 58 aahaa+t+s F+++YnPras+seFv+++ k++ka++ ++vsvGmRf+m fete+ss rr evm.model.supercontig_17.53 253 AAHAAATNSRFTIFYNPRASPSEFVIPLTKYVKAVYhTRVSVGMRFRMLFETEESSVRR 311 79*******************************9789**************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.57E-49	112	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.6E-43	120	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.37E-23	126	227	No hit	No description
Pfam	PF02362	8.9E-23	127	228	IPR003340	B3 DNA binding domain
SMART	SM01019	1.8E-24	127	229	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.548	127	229	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-20	253	311	IPR010525	Auxin response factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009733	Biological Process	response to auxin
GO:0009908	Biological Process	flower development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 312 aa Download sequence Send to blast
MRLSSAGFNP QAQEGEKRVL NSELWHACAG PLVSLPPVGS RVVYFPQGHS EQVAASTNKE 60 VDTHIPNYPS LPPQLICQLH NVTMHADLET DEVYAQMTLQ PLSPQEQKDA YLPAELGTPS 120 RQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDYSQ QPPAQELIAR DLHDNEWKFR 180 HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNEKNQ LLLGIRRANR PQTVMPSSVL 240 SSDSMHLGLL AAAAHAAATN SRFTIFYNPR ASPSEFVIPL TKYVKAVYHT RVSVGMRFRM 300 LFETEESSVR R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-147	11	311	41	342	Auxin response factor 5
Search in ModeBase

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	evm.model.supercontig_17.53

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_021904769.1	0.0	auxin response factor 6
Swissprot	Q9ZTX8	0.0	ARFF_ARATH; Auxin response factor 6
TrEMBL	A0A067KP61	0.0	A0A067KP61_JATCU; Auxin response factor
TrEMBL	B9T414	0.0	B9T414_RICCO; Auxin response factor
STRING	evm.model.supercontig_17.53	0.0	(Carica papaya)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1344	28	94
Representative plant	OGRP856	14	56

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	evm.model.supercontig_17.53

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]