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.9KG252400.2.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

HD-ZIP

Protein Properties

Length: 296aa MW: 32387.2 Da PI: 4.8102

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.9KG252400.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.8	4.3e-19	69	122	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k++++ ++q+++Le+ Fe +++++ e+++++A+ l+L rqV vWFqNrRa++k Pavir.9KG252400.2.p 69 KKRRLAADQVRALERSFEVDNKLDPERKARIAHDLSLHPRQVAVWFQNRRARWK 122 4557899**********************************************9 PP
2	HD-ZIP_I/II	125	3.4e-40	68	160	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 ekkrrl+++qv++LE+sFe ++kL+perK+++a++L l+prqvavWFqnrRAR+ktkq+E+d++aL++++dal++e ++L++++++L++e Pavir.9KG252400.2.p 68 EKKRRLAADQVRALERSFEVDNKLDPERKARIAHDLSLHPRQVAVWFQNRRARWKTKQIERDFAALRARHDALRAECDALRRDKDTLAAE 157 69**************************************************************************************99 PP HD-ZIP_I/II 91 lke 93 ++e Pavir.9KG252400.2.p 158 IRE 160 986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.0E-19	48	125	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.88E-18	59	126	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.342	64	124	IPR001356	Homeobox domain
SMART	SM00389	4.3E-19	67	128	IPR001356	Homeobox domain
CDD	cd00086	4.37E-16	69	125	No hit	No description
Pfam	PF00046	2.2E-16	69	122	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	99	122	IPR017970	Homeobox, conserved site
Pfam	PF02183	7.8E-15	124	165	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 296 aa Download sequence Send to blast
MKRPTSRGSS MVSQATTDQQ DSCRYMERHG VDGDGGAAAA ERDDMEAGAY DEEDDDDEQA 60 GSRGGLGEKK RRLAADQVRA LERSFEVDNK LDPERKARIA HDLSLHPRQV AVWFQNRRAR 120 WKTKQIERDF AALRARHDAL RAECDALRRD KDTLAAEIRE LREKVERQMD VKLESAEEML 180 PVAAGTAAAA AAAAVYKDGS TDSDSSAVFN EEASPYSGAA FDHQHQHQFH PSFTSFTSFL 240 ASSSSLSSSF PSSLYHGVSH LDQEADGFLS ATAADGFFAE EQGAGLGSWY GSEGW*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	116	124	RRARWKTKQ

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.17819	0.0	callus\| root\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, stems, leaf blades and panicles. {ECO:0000269\|PubMed:17999151}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.9KG252400.2.p

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	BT042027	0.0	BT042027.1 Zea mays full-length cDNA clone ZM_BFb0113G23 mRNA, complete cds.
GenBank	KJ727556	0.0	KJ727556.1 Zea mays clone pUT5416 HB transcription factor (HB127) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025792353.1	1e-167	homeobox-leucine zipper protein HOX8-like isoform X2
Swissprot	Q338Z7	3e-92	HOX8_ORYSJ; Homeobox-leucine zipper protein HOX8
TrEMBL	A0A3L6SDJ8	1e-167	A0A3L6SDJ8_PANMI; Homeobox-leucine zipper protein HOX8-like isoform X1
STRING	Pavir.J35191.1.p	1e-168	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G40060.1	7e-34	homeobox protein 16

Link Out ? help Back to Top
Phytozome	Pavir.9KG252400.2.p

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992]