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

Pavir.5NG199200.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

HB-PHD

Protein Properties

Length: 723aa MW: 79250.4 Da PI: 4.6665

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5NG199200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	34.1	4.7e-11	569	608	13	52
HHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 13 eeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 + L e+F+ ++yps++ +e LA++lgLt +qV+ WF rR Pavir.5NG199200.1.p 569 QKLHEHFKTDQYPSRSVKESLAEELGLTFQQVSKWFESRR 608 6799**********************************99 PP
2	PHD	43.1	9.4e-15	214	269	1	51
SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS PHD 1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 +C+ Cg + +++++lCdg C++ fH++Cl+++l++e++peg wlC+ C++k Pavir.5NG199200.1.p 214 FCATCGLkdVTLGNDIILCDGaCDRGFHQNCLNPPLRTEDIPEGdeGWLCPACDCK 269 69*9954445****66*******************9*****985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	2.21E-13	204	272	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	1.0E-12	211	269	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	11.012	212	269	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	5.6E-11	214	267	IPR001965	Zinc finger, PHD-type
Pfam	PF00628	6.7E-12	214	269	IPR019787	Zinc finger, PHD-finger
CDD	cd15504	3.05E-26	214	266	No hit	No description
PROSITE pattern	PS01359	0	215	266	IPR019786	Zinc finger, PHD-type, conserved site
Gene3D	G3DSA:1.10.10.60	6.0E-12	545	608	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.65E-10	550	609	IPR009057	Homeodomain-like
PROSITE profile	PS50071	13.443	554	614	IPR001356	Homeobox domain
SMART	SM00389	7.1E-11	556	618	IPR001356	Homeobox domain
CDD	cd00086	8.87E-11	563	608	No hit	No description
Pfam	PF00046	1.8E-8	569	608	IPR001356	Homeobox domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 723 aa Download sequence Send to blast
MDKNTPCPVE GNGEIKNGVS SSQNPEAVEH HVMSPSQTMQ NTMGIRKNYK RAANRGKKGS 60 QGLTGQTYTL RSSGNNVRML RSTSSSKTKP TEHAQTPVQP AEPAAKRRKR GRPTNTNKSS 120 TDEFSQIRKR VRYILNRMNY EQSLIEAYAS EGWKNQSLDK IRPEKELERA KAEILRCKLR 180 IREVFQNLDS LLTKGKIDES LFDSEGEISC EDIFCATCGL KDVTLGNDII LCDGACDRGF 240 HQNCLNPPLR TEDIPEGDEG WLCPACDCKL DCIDIINELQ GSDLSIDDSW EKVFPEAAAL 300 ANGSKQDDAF DLPSDDSDDN DFDPNMSEEH VASKEEGSSE EEEDEDGGSD SDNSNFLTSS 360 DSDGSGPLTT DKKKVDDLGL PSEDSEDDDY DPAGPDSDND SDRDIQKNKS TSDGSDFTSD 420 SDDFCKEIAK SGGHDEVSSP PLPDVKVDDM ERSTAQADTE NSNGDPMETE MDQSVVLPVS 480 GRRQSERLDY KKLYDEAYGE APSDSSDDEE WSGKNTPTKG NEEIGADSPA GKSLHPDSLH 540 GSVDKKHGDG SNGSNSATRK GHFGPVINQK LHEHFKTDQY PSRSVKESLA EELGLTFQQV 600 SKWFESRRHF AKVTSSRKGI CPDNHRPENT DSPMAAGTQL NKPEGTEMEK PNIGRNKDAT 660 ISGKLGSPKV GSRKNRGKNA SGGDVRGSKV DSAEEQVPGL DLADKARQKA IQREIMKKKK 720 GR*

Sequence ? help Back to Top

Protein Sequence Length: 723 aa Download sequence Send to blast

MDKNTPCPVE GNGEIKNGVS SSQNPEAVEH HVMSPSQTMQ NTMGIRKNYK RAANRGKKGS  60
QGLTGQTYTL RSSGNNVRML RSTSSSKTKP TEHAQTPVQP AEPAAKRRKR GRPTNTNKSS  120
TDEFSQIRKR VRYILNRMNY EQSLIEAYAS EGWKNQSLDK IRPEKELERA KAEILRCKLR  180
IREVFQNLDS LLTKGKIDES LFDSEGEISC EDIFCATCGL KDVTLGNDII LCDGACDRGF  240
HQNCLNPPLR TEDIPEGDEG WLCPACDCKL DCIDIINELQ GSDLSIDDSW EKVFPEAAAL  300
ANGSKQDDAF DLPSDDSDDN DFDPNMSEEH VASKEEGSSE EEEDEDGGSD SDNSNFLTSS  360
DSDGSGPLTT DKKKVDDLGL PSEDSEDDDY DPAGPDSDND SDRDIQKNKS TSDGSDFTSD  420
SDDFCKEIAK SGGHDEVSSP PLPDVKVDDM ERSTAQADTE NSNGDPMETE MDQSVVLPVS  480
GRRQSERLDY KKLYDEAYGE APSDSSDDEE WSGKNTPTKG NEEIGADSPA GKSLHPDSLH  540
GSVDKKHGDG SNGSNSATRK GHFGPVINQK LHEHFKTDQY PSRSVKESLA EELGLTFQQV  600
SKWFESRRHF AKVTSSRKGI CPDNHRPENT DSPMAAGTQL NKPEGTEMEK PNIGRNKDAT  660
ISGKLGSPKV GSRKNRGKNA SGGDVRGSKV DSAEEQVPGL DLADKARQKA IQREIMKKKK  720
GR*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.9592	1e-155	callus\| leaf\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in kernels, leaves and shoots but not in roots.

Functional Description ? help Back to Top
Source	Description
UniProt	Interacts with the shrunken (SHR) 26 bp feedback control element.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5NG199200.1.p

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_025807084.1	0.0	homeobox protein HOX1A-like isoform X1
Refseq	XP_025807085.1	0.0	homeobox protein HOX1A-like isoform X1
Swissprot	P46605	0.0	HOX1A_MAIZE; Homeobox protein HOX1A
TrEMBL	A0A3L6T4F2	0.0	A0A3L6T4F2_PANMI; Homeobox protein HOX1A-like
STRING	Pavir.J08756.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4393	37	68

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G19510.1	3e-86	Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain

Link Out ? help Back to Top
Phytozome	Pavir.5NG199200.1.p

Publications ? help Back to Top
Bellmann R,Werr W Zmhox1a, the product of a novel maize homeobox gene, interacts with the Shrunken 26 bp feedback control element. EMBO J., 1992. 11(9): p. 3367-74 [PMID:1354614]