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

LPERR02G15710.1

Organism

Leersia perrieri

Taxonomic ID

77586

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Leersia

Family

Trihelix

Protein Properties

Length: 1185aa MW: 132398 Da PI: 9.7005

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR02G15710.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	67.2	3.4e-21	1093	1173	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +e++ Li++r em+e++++ k ++ lWee+s + +g++r+p qCk+ w +l ++y++ k+ e++ ++t+pyf +++ LPERR02G15710.1 1093 KWKPEEIKSLIQMRGEMNEKFQTVKGRMVLWEEISTSLLNQGISRTPAQCKSLWTSLVQKYEESKKDEES-----VKTWPYFLDMD 1173 7***************************************************************9998.....689****98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	1.6E-14	104	186	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	7.28E-28	105	218	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	7.28E-28	260	393	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	5.3E-7	336	366	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3D	G3DSA:3.60.15.10	4.6E-38	613	803	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	4.72E-31	614	806	IPR001279	Metallo-beta-lactamase
SMART	SM00849	3.0E-6	626	847	IPR001279	Metallo-beta-lactamase
PROSITE profile	PS50090	7.805	1086	1150	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	5.9E-5	1090	1152	IPR009057	Homeodomain-like
SMART	SM00717	0.004	1090	1152	IPR001005	SANT/Myb domain
Pfam	PF13837	1.6E-16	1092	1174	No hit	No description
CDD	cd12203	4.75E-22	1092	1157	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009658	Biological Process	chloroplast organization
GO:0009942	Biological Process	longitudinal axis specification
GO:0060918	Biological Process	auxin transport
GO:0009507	Cellular Component	chloroplast
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1185 aa Download sequence Send to blast
MPLRSRAPPL LLLLHVRLYL VLRGAASSSS LRQSGIRIRL WGTCSFVTPN FTCYCVIAEP 60 RSPGPVIPAL DSSTPIFASS FTMEPLFCGI LFSSTEMYLF IFGQLIKRRL KEFGIFLSSR 120 LKVFRVRKRF QAGPFEVEPL RVTHSIPDCC GLVLRCADGI IFHTGDWKID ESPVDGKIFD 180 RQALEELSKE GVTLVFVGMS LRTYLDAAFR DGKSPIDPST LVNRFMYALT YIFFSSFLVN 240 LSGGSDPLFL DKVKVEDMDA YAPKDLLIVT TGSQAEPRAA LNLASFGGSH ALKLSKEDVL 300 LYSAKVIPGN ESRVMKMLNR LTELGPKIVM GKDAGLHTSG HAYRDELEEV LQIVKPQHFL 360 PVHGELLYLK EHELLGRSTG IRHTTVIKNG EMLGVSHLRN RRVLSNGFVA LGKQDLRLMY 420 SDGDKAFGTS TDLCIDERLR IASDGIIFVS MEIFRPNKEL GSSQSGLKGK FKITTRCLWL 480 DNGRLLDALY KAAYAALXPS ARSGPLPFLH PSRLPTGAAR HGGARLPLVP MPLRSRAPPL 540 LLLLHVRLYL VLRGAASSSS LRQRAFFFLM SAGSQESRTP RRRLRKTEGP TKSLEDSVKR 600 KMEQFYEGLD GPPLRVLPIG GLGEIGMNCM LVGNYDRYIL IDAGVMFPDY DEFGVQKIIP 660 DTTFIKKWSH KIEAVIITHG HEDHIVSIAL ILLIKKYEMV IPALDSSTPI FASSFTMEPL 720 FCGILFSSTE MYLFIFGQLI KRRLKEFGIF LSSRLKVFRV RKRFQAGPFE VEPLRVTHSI 780 PDCCGLVLRC ADGIIFHTGD WKVIKNGEML GVSHLRNRRV LSNGFVALGK QDLRLMYSDG 840 DKAFGTSTDL CIDERLRIAS DGIIFVSMEI FRPNKELGSS QSGLKGKFKI TTRCLWLDNG 900 RLLDALYKAA YAALSSCPVN CPLSHMERMV SEILRKMVRK YSGKRPDVIT IATENTTSSF 960 VEDSETKSSG KFGSFSSSRH PSSSDRSLED GDKTRPENPE GEAEENPPDV LRTTRDDATT 1020 SSNGEAFFSS DLHKPKTLEH FWDSFKSPTA VKIARIVNGS AQGSKPKLSK ISIMGKDSSD 1080 SSSAPVKSPK KNKWKPEEIK SLIQMRGEMN EKFQTVKGRM VLWEEISTSL LNQGISRTPA 1140 QCKSLWTSLV QKYEESKKDE ESVKTWPYFL DMDRVLSSQG EMATQ

Sequence ? help Back to Top

Protein Sequence Length: 1185 aa Download sequence Send to blast

MPLRSRAPPL LLLLHVRLYL VLRGAASSSS LRQSGIRIRL WGTCSFVTPN FTCYCVIAEP  60
RSPGPVIPAL DSSTPIFASS FTMEPLFCGI LFSSTEMYLF IFGQLIKRRL KEFGIFLSSR  120
LKVFRVRKRF QAGPFEVEPL RVTHSIPDCC GLVLRCADGI IFHTGDWKID ESPVDGKIFD  180
RQALEELSKE GVTLVFVGMS LRTYLDAAFR DGKSPIDPST LVNRFMYALT YIFFSSFLVN  240
LSGGSDPLFL DKVKVEDMDA YAPKDLLIVT TGSQAEPRAA LNLASFGGSH ALKLSKEDVL  300
LYSAKVIPGN ESRVMKMLNR LTELGPKIVM GKDAGLHTSG HAYRDELEEV LQIVKPQHFL  360
PVHGELLYLK EHELLGRSTG IRHTTVIKNG EMLGVSHLRN RRVLSNGFVA LGKQDLRLMY  420
SDGDKAFGTS TDLCIDERLR IASDGIIFVS MEIFRPNKEL GSSQSGLKGK FKITTRCLWL  480
DNGRLLDALY KAAYAALXPS ARSGPLPFLH PSRLPTGAAR HGGARLPLVP MPLRSRAPPL  540
LLLLHVRLYL VLRGAASSSS LRQRAFFFLM SAGSQESRTP RRRLRKTEGP TKSLEDSVKR  600
KMEQFYEGLD GPPLRVLPIG GLGEIGMNCM LVGNYDRYIL IDAGVMFPDY DEFGVQKIIP  660
DTTFIKKWSH KIEAVIITHG HEDHIVSIAL ILLIKKYEMV IPALDSSTPI FASSFTMEPL  720
FCGILFSSTE MYLFIFGQLI KRRLKEFGIF LSSRLKVFRV RKRFQAGPFE VEPLRVTHSI  780
PDCCGLVLRC ADGIIFHTGD WKVIKNGEML GVSHLRNRRV LSNGFVALGK QDLRLMYSDG  840
DKAFGTSTDL CIDERLRIAS DGIIFVSMEI FRPNKELGSS QSGLKGKFKI TTRCLWLDNG  900
RLLDALYKAA YAALSSCPVN CPLSHMERMV SEILRKMVRK YSGKRPDVIT IATENTTSSF  960
VEDSETKSSG KFGSFSSSRH PSSSDRSLED GDKTRPENPE GEAEENPPDV LRTTRDDATT  1020
SSNGEAFFSS DLHKPKTLEH FWDSFKSPTA VKIARIVNGS AQGSKPKLSK ISIMGKDSSD  1080
SSSAPVKSPK KNKWKPEEIK SLIQMRGEMN EKFQTVKGRM VLWEEISTSL LNQGISRTPA  1140
QCKSLWTSLV QKYEESKKDE ESVKTWPYFL DMDRVLSSQG EMATQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	7e-34	116	803	19	525	RIBONUCLEASE J
5a0t_B	7e-34	116	803	19	525	RIBONUCLEASE J
5a0v_A	7e-34	116	803	19	525	RIBONUCLEASE J
5a0v_B	7e-34	116	803	19	525	RIBONUCLEASE J
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	580	585	RRRLRK

Functional Description ? help Back to Top
Source	Description
UniProt	Essential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250\|UniProtKB:Q72JJ7, ECO:0000269\|PubMed:15266054, ECO:0000269\|PubMed:22033332, ECO:0000269\|PubMed:25871650}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR02G15710.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:25871650}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK059666	0.0	AK059666.1 Oryza sativa Japonica Group cDNA clone:001-031-F01, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006647353.1	0.0	PREDICTED: ribonuclease J isoform X2
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A0D9VGT5	0.0	A0A0D9VGT5_9ORYZ; Uncharacterized protein
STRING	LPERR02G15710.1	0.0	(Leersia perrieri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4996	35	42

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	0.0	Trihelix family protein

Publications ? help Back to Top
Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis. Plant Physiol., 2011. 155(4): p. 1678-89 [PMID:21139083] Halpert M,Liveanu V,Glaser F,Schuster G The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities. Plant Mol. Biol., 2019. 99(1-2): p. 17-29 [PMID:30511330]