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

maker-scaffold00414-snap-gene-0.36-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

ARF

Protein Properties

Length: 315aa MW: 35264.3 Da PI: 8.2456

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
maker-scaffold00414-snap-gene-0.36-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75.9	4.4e-24	126	227	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvl 61 f+k+lt sd++++g +++p++ ae+ +++++ ++l+ +d++ +W++++i+r++++r++l maker-scaffold00414-snap-gene-0.36-mRNA-1 126 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDVEWKFRHIFRGQPKRHLL 191 99***************************8544444..48********************** PP -TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS B3 62 tkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 t+GW+ Fv+a++L +gD+v+F ++++ +l+++++r+ maker-scaffold00414-snap-gene-0.36-mRNA-1 192 TTGWSVFVSAKRLVAGDSVLFI--WNEKNQLLLGIRRA 227 ******************..8899999**997 PP
2	Auxin_resp	62.3	1.9e-21	252	315	1	57
Auxin_resp 1 aahaastksvFevvYnPr......astseFvvkvekvekalk.vkvsvGmRfkmafetedsser 57 aahaast+s F+v+YnPr as+seFvv+++k++ka+ ++vsvGmRf+m fete+ss r maker-scaffold00414-snap-gene-0.36-mRNA-1 252 AAHAASTNSCFTVFYNPRssiiyrASPSEFVVPLSKYVKAVFhTRVSVGMRFRMLFETEESSVR 315 79*************7333333679*********87599*************9965 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.35E-50	110	255	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.5E-42	119	241	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.67E-22	125	226	No hit	No description
Pfam	PF02362	2.6E-22	126	227	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.337	126	228	IPR003340	B3 DNA binding domain
SMART	SM01019	1.1E-23	126	228	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-16	252	314	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:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 315 aa Download sequence Send to blast
MKLSTSGLTQ LDHEEKKCLN SELWHACAGP LVSLPTPGTR VVYFPQGHSE QVAASTNKEI 60 DGHIPNYPSL PPQLMCQLHN VTMHADVETD EVYAQMTLQP LTPEEQKDTF LPMELGIPSK 120 QPTNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDFSQQ PPAQELIARD LHDVEWKFRH 180 IFRGQPKRHL LTTGWSVFVS AKRLVAGDSV LFIWNEKNQL LLGIRRATRP QTVMPSSVLS 240 SDSMHIGLLA AAAHAASTNS CFTVFYNPRS SIIYRASPSE FVVPLSKYVK AVFHTRVSVG 300 MRFRMLFETE ESSVR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-139	16	315	48	341	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 ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16107481, ECO:0000269\|PubMed:16829592}.

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

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023894716.1	0.0	auxin response factor 8
Swissprot	Q9FGV1	0.0	ARFH_ARATH; Auxin response factor 8
TrEMBL	A0A2N9G997	0.0	A0A2N9G997_FAGSY; Auxin response factor
STRING	XP_008381532.1	0.0	(Malus domestica)
STRING	cassava4.1_001769m	0.0	(Manihot esculenta)
STRING	cassava4.1_001923m	0.0	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4958	28	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G37020.2	0.0	auxin response factor 8

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] 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] Wang Y, et al. MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development. Plant Physiol., 2015. 168(3): p. 984-99 [PMID:25941314] 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] Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants. Plant Physiol. Biochem., 2016. 104: p. 146-54 [PMID:27031426] Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8. Plant Physiol., 2016. 172(3): p. 1853-1861 [PMID:27688620] 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] Zheng K, et al. Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis. Front Plant Sci, 2017. 8: p. 1813 [PMID:29114256] 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] Ghelli R, et al. A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis. Plant Cell, 2018. 30(3): p. 620-637 [PMID:29514943]