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

Lus10024455

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

ARF

Protein Properties

Length: 685aa MW: 76107.7 Da PI: 6.0021

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10024455	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.1	6.9e-23	128	229	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 f+k+lt sd++++g +++ +++a+++ +++ ++l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F + +++e Lus10024455 128 FCKTLTASDTSTHGGFSVLRRHADDClpsldmsQQP--PWQELVATDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RGESGE 221 99**************************964333..4459*********************************************..44999 PP .EEEEE-S CS B3 92 lvvkvfrk 99 l+v+v+r+ Lus10024455 222 LRVGVRRH 229 ******96 PP
2	Auxin_resp	109.7	3e-36	254	336	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t++ F+v+Y+Pr+s+seF+v+v+k+++a++ k+svGmRfkm+fe+e+++err+sGt+vgv d ++ W++S WrsLk Lus10024455 254 ASHAIATGTLFSVFYKPRTSRSEFIVSVNKYLEAVNYKLSVGMRFKMRFEGEEVPERRFSGTIVGVGDDVSSGWSDSDWRSLK 336 789***************************************************************9**********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	6.41E-44	117	257	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.0E-40	125	243	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.62E-20	126	228	No hit	No description
PROSITE profile	PS50863	11.335	128	230	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-20	128	229	IPR003340	B3 DNA binding domain
SMART	SM01019	3.2E-21	128	230	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.0E-34	254	336	IPR010525	Auxin response factor
Pfam	PF02309	4.7E-11	545	639	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.875	553	646	IPR000270	PB1 domain
SuperFamily	SSF54277	8.44E-12	556	630	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: 685 aa Download sequence Send to blast
MAFTATSHPT GAHLHPGACN DALYKELWHA CAGSLVTLPR EGERVYYFPQ GHMEQLEASM 60 QQGVEHQMPM FNLPSKILCK VVNVQRKAEA ETDEVYAQVT LLPEPDQSEI TSPDTPLPEP 120 ERCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPSLDMS QQPPWQELVA TDLHGNEWHF 180 RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGESG ELRVGVRRHM RQQTNMPSSV 240 ISSQSMHLGV LATASHAIAT GTLFSVFYKP RTSRSEFIVS VNKYLEAVNY KLSVGMRFKM 300 RFEGEEVPER RFSGTIVGVG DDVSSGWSDS DWRSLKVQWD EPASIWRPDR VSSWELEPLI 360 ASTPSNSQPM NRNNKRLRPS VIPSPSPDLN GMWKAPVDSS NHSQFDSRCG YLYPSPTYPA 420 KTKASSLGFS GNCPLSAVST NPSLYWPKQV EGVTESLSPA VNRNVGDMKQ GTGNGYRLFG 480 IQLVDNSNME ETLLVGAVSQ PVRADCPILS VDAESDQQSE PSNVFRCEIG SASYDAEKSS 540 LRSPQELHSR QVRSCTKVHM QGIAVGRAVD LTRFECYDDL LSKLEYMFDI QGELRGCTKK 600 WQVVYTDDED DMMMVGDDPW HEFCSMVRKI FIYTSEEVKK MSAKVKLPVR EDMKTGSGCD 660 VDVDGAAAAA ANMEDQSSII GSES*

Sequence ? help Back to Top

Protein Sequence Length: 685 aa Download sequence Send to blast

MAFTATSHPT GAHLHPGACN DALYKELWHA CAGSLVTLPR EGERVYYFPQ GHMEQLEASM  60
QQGVEHQMPM FNLPSKILCK VVNVQRKAEA ETDEVYAQVT LLPEPDQSEI TSPDTPLPEP  120
ERCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPSLDMS QQPPWQELVA TDLHGNEWHF  180
RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGESG ELRVGVRRHM RQQTNMPSSV  240
ISSQSMHLGV LATASHAIAT GTLFSVFYKP RTSRSEFIVS VNKYLEAVNY KLSVGMRFKM  300
RFEGEEVPER RFSGTIVGVG DDVSSGWSDS DWRSLKVQWD EPASIWRPDR VSSWELEPLI  360
ASTPSNSQPM NRNNKRLRPS VIPSPSPDLN GMWKAPVDSS NHSQFDSRCG YLYPSPTYPA  420
KTKASSLGFS GNCPLSAVST NPSLYWPKQV EGVTESLSPA VNRNVGDMKQ GTGNGYRLFG  480
IQLVDNSNME ETLLVGAVSQ PVRADCPILS VDAESDQQSE PSNVFRCEIG SASYDAEKSS  540
LRSPQELHSR QVRSCTKVHM QGIAVGRAVD LTRFECYDDL LSKLEYMFDI QGELRGCTKK  600
WQVVYTDDED DMMMVGDDPW HEFCSMVRKI FIYTSEEVKK MSAKVKLPVR EDMKTGSGCD  660
VDVDGAAAAA ANMEDQSSII GSES*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	17	359	13	355	Auxin response factor 1
4ldw_A	0.0	17	359	13	355	Auxin response factor 1
4ldw_B	0.0	17	359	13	355	Auxin response factor 1
4ldx_A	0.0	17	359	13	355	Auxin response factor 1
4ldx_B	0.0	17	359	13	355	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). Seems to act as transcriptional repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16176952}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10024455

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_012066757.1	0.0	auxin response factor 1
Refseq	XP_021639534.1	0.0	auxin response factor 1-like isoform X2
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	A0A067LDD2	0.0	A0A067LDD2_JATCU; Auxin response factor
STRING	Lus10024455	0.0	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6802	26	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.4	0.0	auxin response factor 1

Link Out ? help Back to Top
Phytozome	Lus10024455

Publications ? help Back to Top
Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum. Plant J., 2014. 80(6): p. 1014-30 [PMID:25312353] Marais C, et al. The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana. J. Exp. Bot., 2015. 66(21): p. 6665-78 [PMID:26208648] 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 M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131]