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

HL.SW.v1.0.G025845.1

Organism

Humulus lupulus

Taxonomic ID

3486

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus

Family

ARF

Protein Properties

Length: 316aa MW: 35853.8 Da PI: 10.3729

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
HL.SW.v1.0.G025845.1	genome	HOPBASE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	77	2e-24	106	207	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++ + + + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F HL.SW.v1.0.G025845.1 106 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QRRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVNQKNLVSGDAVLFL 193 99**************************853.3345679******************************************** PP E-SSSEE..EEEEE-S CS B3 84 ldgrsefelvvkvfrk 99 + +++el+++++r+ HL.SW.v1.0.G025845.1 194 --RGENGELRLGIRRS 207 ..4499999**996 PP
2	Auxin_resp	119.1	3.4e-39	232	313	1	82
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 +a+a+stks+F+v+Y+Pra+++eFv++++k+ k++k++v++G+Rfk +f++eds+err+sG+v+g+ dldp+rW nSkWr+L HL.SW.v1.0.G025845.1 232 VANAVSTKSMFHVFYSPRATHAEFVIPYQKYAKSIKNPVAIGTRFKTRFDMEDSPERRCSGVVTGICDLDPYRWANSKWRCL 313 689******************************************************************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.22E-44	98	218	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.4E-41	99	217	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.61E-23	104	206	No hit	No description
Pfam	PF02362	1.6E-22	106	207	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.14	106	208	IPR003340	B3 DNA binding domain
SMART	SM01019	2.3E-24	106	208	IPR003340	B3 DNA binding domain
Pfam	PF06507	7.7E-33	232	313	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: 316 aa Download sequence Send to blast
MSGWRGRLDG YCDGALREPD PKTSGEPSPW REPDPKSFRP PFSLRELDPK RFRPPFSLRE 60 LGSFRPTFNN KTARLVGVKQ EGKELEELVG DEGIGGSPTK STPHMFCKTL TASDTSTHGG 120 FSVPRRAAED CFPPLDYKQR RPSQELVAKD LHGVEWRFRH IYRGQPRRHL LTTGWSIFVN 180 QKNLVSGDAV LFLRGENGEL RLGIRRSVRP RNGLPDSIVR NQNSYPNVLS LVANAVSTKS 240 MFHVFYSPRA THAEFVIPYQ KYAKSIKNPV AIGTRFKTRF DMEDSPERRC SGVVTGICDL 300 DPYRWANSKW RCLMV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	2e-84	98	315	116	333	Auxin response factor 1
4ldw_A	2e-84	98	315	116	333	Auxin response factor 1
4ldw_B	2e-84	98	315	116	333	Auxin response factor 1
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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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269\|PubMed:12036261}.

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_024026349.1	1e-163	auxin response factor 4 isoform X3
Swissprot	Q9ZTX9	1e-137	ARFD_ARATH; Auxin response factor 4
TrEMBL	A0A182BLZ1	1e-163	A0A182BLZ1_BOENI; Auxin response factor
STRING	XP_010104118.1	1e-162	(Morus notabilis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5236	32	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60450.1	1e-139	auxin response factor 4

Publications ? help Back to Top
Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors. Mol. Gen. Mikrobiol. Virusol., 2013. [PMID:24003511] Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis. Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71 [PMID:26108442] 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] Matsumura Y, et al. A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis. Biol Open, 2016. 5(7): p. 942-54 [PMID:27334696] Guan C, et al. Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis. Curr. Biol., 2017. 27(19): p. 2940-2950.e4 [PMID:28943086] 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]