PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 324aa MW: 34828.3 Da PI: 9.458

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.I04022.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.1	1.7e-19	173	227	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++k+q +Lee F+++++++ ++++ LAk+l+L+ rqV vWFqNrRa+ k Pahal.I04022.1 173 RKKLRLSKDQAAVLEESFKEHNTLNPKQKAALAKQLNLKPRQVEVWFQNRRARTK 227 788899***********************************************98 PP
2	HD-ZIP_I/II	127.5	5.5e-41	173	262	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rlsk+q+++LEesF+e+++L+p++K++la++L+l+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL++ev+eLr +l Pahal.I04022.1 173 RKKLRLSKDQAAVLEESFKEHNTLNPKQKAALAKQLNLKPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCETLTEENRRLQREVAELR-AL 262 69*************************************************************************************9.55 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	1.5E-26	14	139	IPR006712	HD-ZIP protein, N-terminal
SuperFamily	SSF46689	6.68E-19	159	230	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.3E-19	160	223	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.281	169	229	IPR001356	Homeobox domain
SMART	SM00389	4.0E-17	171	233	IPR001356	Homeobox domain
CDD	cd00086	4.57E-17	173	230	No hit	No description
Pfam	PF00046	7.4E-17	173	227	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	204	227	IPR017970	Homeobox, conserved site
Pfam	PF02183	1.3E-10	229	263	IPR003106	Leucine zipper, homeobox-associated
SMART	SM00340	8.8E-23	229	272	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:0005634	Cellular Component	nucleus
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: 324 aa Download sequence Send to blast
MEMTVNARDR EQHGLGLGLS LSLSIATAAP VESPPPPPRA MSVAPISSRP APPQPQWWSG 60 AGLFFSPSSG TDRSMERKQQ QQPAALAACH GHEMPFLRGI DVNRAPAGEA RRGSCSEDEE 120 PAASSPNSTL SSLSGKRAAA TRSGELEGDH TPRAGGVGVG SDDEDSGAGG GSRKKLRLSK 180 DQAAVLEESF KEHNTLNPKQ KAALAKQLNL KPRQVEVWFQ NRRARTKLKQ TEVDCEFLKR 240 CCETLTEENR RLQREVAELR ALKLVAPHQY ARMPPPTTLT MCPSCERLAS ADEAGRAARP 300 APTGPWGPVP VRPVFVDGPA RRS*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	171	177	SRKKLRL
2	221	229	RRARTKLKQ

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:10934011, ECO:0000269\|PubMed:9076993}.
UniProt	Probable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:9076993}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269\|PubMed:10732669}.
UniProt	INDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269\|PubMed:10934011}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EU942452	0.0	EU942452.1 Zea mays clone 1503625 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025795353.1	0.0	homeobox-leucine zipper protein HOX1-like
Swissprot	Q40691	2e-85	HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
Swissprot	Q7XC54	2e-85	HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBL	A0A2S3IP41	0.0	A0A2S3IP41_9POAL; Uncharacterized protein
STRING	Pavir.Ia02217.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2587	38	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G44910.1	6e-66	homeobox-leucine zipper protein 4

Link Out ? help Back to Top
Phytozome	Pahal.I04022.1

Publications ? help Back to Top
Scarpella E,Boot KJ,Rueb S,Meijer AH The procambium specification gene Oshox1 promotes polar auxin transport capacity and reduces its sensitivity toward inhibition. Plant Physiol., 2002. 130(3): p. 1349-60 [PMID:12428000] Scarpella E,Rueb S,Meijer AH The RADICLELESS1 gene is required for vascular pattern formation in rice. Development, 2003. 130(4): p. 645-58 [PMID:12505996] 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] Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Scarpella E,Simons EJ,Meijer AH Multiple regulatory elements contribute to the vascular-specific expression of the rice HD-Zip gene Oshox1 in Arabidopsis. Plant Cell Physiol., 2005. 46(8): p. 1400-10 [PMID:15964905] Meijer AH,Ouwerkerk PB,Hoge JH Vectors for transcription factor cloning and target site identification by means of genetic selection in yeast. Yeast, 1998. 14(15): p. 1407-15 [PMID:9848232]