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

Lus10020727

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

bHLH

Protein Properties

Length: 1666aa MW: 183416 Da PI: 7.9928

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10020727	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	51.8	1.4e-16	1411	1457	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRRdriN+++ L+el+P++ +K +Ka++L +A++Y+ksLq Lus10020727 1411 VHNLSERRRRDRINEKMKALQELIPNS-----TKTDKASMLDEAIDYLKSLQ 1457 6***********************9.....9****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00487	4.6E-28	172	381	IPR014001	Helicase superfamily 1/2, ATP-binding domain
Gene3D	G3DSA:3.40.50.300	3.0E-39	178	356	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52540	1.86E-27	186	372	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Pfam	PF00270	1.7E-10	187	355	IPR011545	DEAD/DEAH box helicase domain
PROSITE profile	PS51192	19.689	189	372	IPR014001	Helicase superfamily 1/2, ATP-binding domain
CDD	cd00046	3.40E-25	196	354	No hit	No description
PROSITE pattern	PS00690	0	314	323	IPR002464	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site
PROSITE profile	PS50297	15.379	416	506	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	1.4E-11	419	509	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	2.05E-11	420	506	No hit	No description
SuperFamily	SSF48403	3.58E-12	420	510	IPR020683	Ankyrin repeat-containing domain
CDD	cd00079	4.63E-11	524	681	No hit	No description
PROSITE profile	PS51194	14.672	540	714	IPR001650	Helicase, C-terminal
Pfam	PF00271	1.1E-13	542	673	IPR001650	Helicase, C-terminal
SuperFamily	SSF52540	9.21E-51	543	807	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Gene3D	G3DSA:3.40.50.300	1.3E-12	544	691	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SMART	SM00490	6.2E-18	569	674	IPR001650	Helicase, C-terminal
SMART	SM00847	1.4E-18	737	832	IPR007502	Helicase-associated domain
Pfam	PF04408	2.4E-17	738	828	IPR007502	Helicase-associated domain
Pfam	PF07717	4.3E-6	869	986	IPR011709	Domain of unknown function DUF1605
Gene3D	G3DSA:4.10.280.10	5.6E-19	1405	1465	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.914	1407	1456	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.79E-17	1410	1461	No hit	No description
SuperFamily	SSF47459	8.9E-20	1410	1483	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.6E-14	1411	1457	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.1E-19	1413	1462	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0005524	Molecular Function	ATP binding
GO:0008026	Molecular Function	ATP-dependent helicase activity
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1666 aa Download sequence Send to blast
MARMKGQKGQ KGKSLWGKVN HVPKENRAHI HELLRTFQAS NEPGILISIV SYKLELNCRT 60 GNQRCVSVFK TPGKEPKNKS TGKQQKKEKN NENLSCLTLS EQSQMILQDL FSRYPPEDED 120 LGSRLAQKNR SKAGQKRGDS MFSSPLISKE DIRKKVELLS SKLKKDARFR KTFEARSKLP 180 IAAFSEVIRS TVDSNQVVLI SGETGCGKTT QVPQMLLDHL WSKGEVGKIV CTQPRRISAM 240 SVADRISQER GQTTGDDVGY KASIKYHIRL ESKGSRNSSI VFCTNGILLR VLVSGGTSLS 300 GPSSKRGEEL SGISHIIVDE IHERDRHSDF MLTVIRDLLP LYPHLRLILM SATLDAERFA 360 QYFGGCPIIR VPGFTFPVTA LYLEDALSIL KSSNGNHPDS SMQDSPNDLS KEEKAALDEA 420 IHLAWFNDEF DLLMDLVSSG GSPNVYNYQH SSTGLTPLMV FAGKGRVGDV CMLLSVGANH 480 GLKNKDGMTA LALAERENQQ EVAGVLKGHI CSALCDPSEH QALLDKYLAE VDPDLIDVML 540 IERLLKKICQ DSRDGAIIVF LPGWDDINKI RKRLLENSFF KDPSKFLIIS LHSMVPPAEQ 600 KKVFDRPRLG CRKIVLSTNI AESSITIDDV VYVIDSGRMK EKSYDPFSNV STLQTSWISK 660 ASAKQREGRA GRCQPGICYH LFSKFRAASL PDFQVPEIRR IPIDELCLQV KLLDPSCKIE 720 SFLLKTMDPP YPESIANAIG ALEELGALSP GEQLTELGKT LGRLPVHPLI SKMLLFGVLM 780 NCLDPALTIA CAADYRSPFM LPISPDEKKK ANDRKFELGS VYGGFSDQLA VVAAFDCWRK 840 AKDKGKAAVF CSDYHLPVGT MKMLSSMRKQ LHEELIRHGL IPEDVSTCNG NACDPSIIAA 900 VLVASMYPNV GKVLPPKDDK RGVIQTADGA KVRLNNFSLC GKLMSTKYDV CPLVVYDEVT 960 RGDMGMRIMS CTVVGPVPLV LLATEIAVAT ANDDNTDGDN KDGKNDAENK TDDDGMEIDD 1020 LTGQKIMSAP DNPVTIVMDR WLHLKSKAID VAQIYCLKER LSAAIIFKVS NPRKSLPPAL 1080 KASMQAIARV LSCDGLAGMP LLNPEISKIQ STCQNLVARS DLLLLNFTPA AAAVAVLDLH 1140 PISHLGPATH PLIIRHVDFQ RCRGGNHGGE ESRAMNHHHN HYLADWSSFD QPDHLLSHKK 1200 STGGDNNELV ELLWRDGQVV LQTQTPKRII NHNNNNPLSD LIQDDETVSW IHYPFPDAAA 1260 AADETEFCSN VLSEFPDFPA SGAPDPNEGI SKQPTNHHQQ QEVVGKEGSV MTVGSSNRFP 1320 VPPTQGFPTA AKKTPPFSER KTAATGTSSS GGSGSGDGST FSKIGGKRKR SLDFNEESEC 1380 QSESAELDQS SGLNKAVKLS KSGRRARAAE VHNLSERRRR DRINEKMKAL QELIPNSTKT 1440 DKASMLDEAI DYLKSLQLQL QVMWMGSGMA AQGVMFPGMQ HYMSRLGMGM GLGMGFGMTG 1500 HPPVPPHISG GIPLMNNHHQ PSSSSSHSHQ AVTQLVNNHN NNIRSDHQIQ HHNNHISQAV 1560 AAQAAFSDQY AHLMAFHLQP TPSSTQLADQ RFADTRWLLG LQDTSWNVPM LCCNYLRTLH 1620 FSGFYAASMD QKGSRAGRAF QQWRSDYYCK AQEFTSVLFM GGNSL*

Sequence ? help Back to Top

Protein Sequence Length: 1666 aa Download sequence Send to blast

MARMKGQKGQ KGKSLWGKVN HVPKENRAHI HELLRTFQAS NEPGILISIV SYKLELNCRT  60
GNQRCVSVFK TPGKEPKNKS TGKQQKKEKN NENLSCLTLS EQSQMILQDL FSRYPPEDED  120
LGSRLAQKNR SKAGQKRGDS MFSSPLISKE DIRKKVELLS SKLKKDARFR KTFEARSKLP  180
IAAFSEVIRS TVDSNQVVLI SGETGCGKTT QVPQMLLDHL WSKGEVGKIV CTQPRRISAM  240
SVADRISQER GQTTGDDVGY KASIKYHIRL ESKGSRNSSI VFCTNGILLR VLVSGGTSLS  300
GPSSKRGEEL SGISHIIVDE IHERDRHSDF MLTVIRDLLP LYPHLRLILM SATLDAERFA  360
QYFGGCPIIR VPGFTFPVTA LYLEDALSIL KSSNGNHPDS SMQDSPNDLS KEEKAALDEA  420
IHLAWFNDEF DLLMDLVSSG GSPNVYNYQH SSTGLTPLMV FAGKGRVGDV CMLLSVGANH  480
GLKNKDGMTA LALAERENQQ EVAGVLKGHI CSALCDPSEH QALLDKYLAE VDPDLIDVML  540
IERLLKKICQ DSRDGAIIVF LPGWDDINKI RKRLLENSFF KDPSKFLIIS LHSMVPPAEQ  600
KKVFDRPRLG CRKIVLSTNI AESSITIDDV VYVIDSGRMK EKSYDPFSNV STLQTSWISK  660
ASAKQREGRA GRCQPGICYH LFSKFRAASL PDFQVPEIRR IPIDELCLQV KLLDPSCKIE  720
SFLLKTMDPP YPESIANAIG ALEELGALSP GEQLTELGKT LGRLPVHPLI SKMLLFGVLM  780
NCLDPALTIA CAADYRSPFM LPISPDEKKK ANDRKFELGS VYGGFSDQLA VVAAFDCWRK  840
AKDKGKAAVF CSDYHLPVGT MKMLSSMRKQ LHEELIRHGL IPEDVSTCNG NACDPSIIAA  900
VLVASMYPNV GKVLPPKDDK RGVIQTADGA KVRLNNFSLC GKLMSTKYDV CPLVVYDEVT  960
RGDMGMRIMS CTVVGPVPLV LLATEIAVAT ANDDNTDGDN KDGKNDAENK TDDDGMEIDD  1020
LTGQKIMSAP DNPVTIVMDR WLHLKSKAID VAQIYCLKER LSAAIIFKVS NPRKSLPPAL  1080
KASMQAIARV LSCDGLAGMP LLNPEISKIQ STCQNLVARS DLLLLNFTPA AAAVAVLDLH  1140
PISHLGPATH PLIIRHVDFQ RCRGGNHGGE ESRAMNHHHN HYLADWSSFD QPDHLLSHKK  1200
STGGDNNELV ELLWRDGQVV LQTQTPKRII NHNNNNPLSD LIQDDETVSW IHYPFPDAAA  1260
AADETEFCSN VLSEFPDFPA SGAPDPNEGI SKQPTNHHQQ QEVVGKEGSV MTVGSSNRFP  1320
VPPTQGFPTA AKKTPPFSER KTAATGTSSS GGSGSGDGST FSKIGGKRKR SLDFNEESEC  1380
QSESAELDQS SGLNKAVKLS KSGRRARAAE VHNLSERRRR DRINEKMKAL QELIPNSTKT  1440
DKASMLDEAI DYLKSLQLQL QVMWMGSGMA AQGVMFPGMQ HYMSRLGMGM GLGMGFGMTG  1500
HPPVPPHISG GIPLMNNHHQ PSSSSSHSHQ AVTQLVNNHN NNIRSDHQIQ HHNNHISQAV  1560
AAQAAFSDQY AHLMAFHLQP TPSSTQLADQ RFADTRWLLG LQDTSWNVPM LCCNYLRTLH  1620
FSGFYAASMD QKGSRAGRAF QQWRSDYYCK AQEFTSVLFM GGNSL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5vhe_A	1e-102	64	996	9	843	DEAH (Asp-Glu-Ala-His) box polypeptide 36
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1415	1420	ERRRRD

Functional Description ? help Back to Top
Source	Description
UniProt	May function as an ATP-dependent RNA/DNA helicase. {ECO:0000250\|UniProtKB:F4IDQ6}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10020727

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_012086291.1	0.0	DExH-box ATP-dependent RNA helicase DExH6
Swissprot	F4INY4	0.0	HVT1_ARATH; DExH-box ATP-dependent RNA helicase DExH6
TrEMBL	A0A067JPZ5	0.0	A0A067JPZ5_JATCU; Uncharacterized protein
STRING	Lus10020727	0.0	(Linum usitatissimum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G59060.1	8e-42	phytochrome interacting factor 3-like 6

Link Out ? help Back to Top
Phytozome	Lus10020727

Publications ? help Back to Top
Nishal B,Tantikanjana T,Sundaresan V An inducible targeted tagging system for localized saturation mutagenesis in Arabidopsis. Plant Physiol., 2005. 137(1): p. 3-12 [PMID:15644463] Xu R,Zhang S,Huang J,Zheng C Genome-wide comparative in silico analysis of the RNA helicase gene family in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza sativa. PLoS ONE, 2013. 8(11): p. e78982 [PMID:24265739] Wei W,Twell D,Lindsey K A novel nucleic acid helicase gene identified by promoter trapping in Arabidopsis. Plant J., 1997. 11(6): p. 1307-14 [PMID:9225469]