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; Cenchrinae; Setaria

Family

HD-ZIP

Protein Properties

Length: 266aa MW: 28604.7 Da PI: 4.5512

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.2G247300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	60.2	3.2e-19	47	100	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k++++++eq+++Le+ Fe ++++ e++++LA+ lgL+ rqV vWFqNrRa++k Sevir.2G247300.1.p 47 KKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 100 45689************************************************9 PP
2	HD-ZIP_I/II	135	2.6e-43	46	138	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 ekkrrls+eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++ydal++++++L++++++L +e+ Sevir.2G247300.1.p 46 EKKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDALRHDHDALRRDKDALVAEI 136 69***************************************************************************************99 PP HD-ZIP_I/II 92 ke 93 ke Sevir.2G247300.1.p 137 KE 138 87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	8.36E-20	38	104	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.475	42	102	IPR001356	Homeobox domain
SMART	SM00389	1.5E-18	45	106	IPR001356	Homeobox domain
Pfam	PF00046	1.5E-16	47	100	IPR001356	Homeobox domain
CDD	cd00086	8.43E-19	47	103	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.8E-20	48	109	IPR009057	Homeodomain-like
PRINTS	PR00031	8.8E-6	73	82	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	77	100	IPR017970	Homeobox, conserved site
PRINTS	PR00031	8.8E-6	82	98	IPR000047	Helix-turn-helix motif
Pfam	PF02183	8.3E-18	102	143	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009637	Biological Process	response to blue light
GO:0030308	Biological Process	negative regulation of cell growth
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
GO:0048573	Biological Process	photoperiodism, flowering
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: 266 aa Download sequence Send to blast
MKRPRGGSPS LLPVANPDDD GYGAAGMMEA EGDAEEEMMA CGGGGEKKRR LSAEQVRALE 60 RSFEVENKLE PERKARLARD LGLQPRQVAV WFQNRRARWK TKQLERDYAA LRHSYDALRH 120 DHDALRRDKD ALVAEIKELK AKLGDEEAAA SFTSVKAEPA ASDGPPAAGV GSSESDSSAV 180 LNDADALVTE APVPEVQGTL LPTPAAAAGA GAAGNHGGVF FHGNFLKVEE DETGFLDDDE 240 PCGGFFAVEQ PPPMAWWTEP TEHWN*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	71	77	ERKARLA
2	94	102	RRARWKTKQ

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:18049796}.
UniProt	Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:18049796}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00051	PBM	Transfer from AT4G40060	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.2G247300.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269\|PubMed:17999151, ECO:0000269\|PubMed:18049796}.
UniProt	INDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269\|PubMed:17999151, ECO:0000269\|PubMed:18049796}.

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	BT034257	0.0	BT034257.1 Zea mays full-length cDNA clone ZM_BFc0009H14 mRNA, complete cds.
GenBank	BT039062	0.0	BT039062.1 Zea mays full-length cDNA clone ZM_BFb0367N11 mRNA, complete cds.
GenBank	BT055374	0.0	BT055374.1 Zea mays full-length cDNA clone ZM_BFb0091J03 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004957072.1	0.0	homeobox-leucine zipper protein HOX4
Swissprot	Q6K498	1e-133	HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
Swissprot	Q9XH37	1e-133	HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBL	K3ZW40	0.0	K3ZW40_SETIT; Uncharacterized protein
STRING	Si030822m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3009	34	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G40060.1	3e-54	homeobox protein 16

Link Out ? help Back to Top
Phytozome	Sevir.2G247300.1.p

Publications ? help Back to Top
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]