PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

HD-ZIP

Protein Properties

Length: 277aa MW: 29392.3 Da PI: 4.3585

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI09G14530.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.4	5.9e-19	51	104	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ eq+++Le+ Fe ++++ e++++LA+ lgL+ rqV vWFqNrRa++k ORUFI09G14530.1 51 KKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 104 456899***********************************************9 PP
2	HD-ZIP_I/II	132.8	1.3e-42	50	142	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 ekkrrls eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++yd+l+ ++++L++++++L +e+ke ORUFI09G14530.1 50 EKKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDSLRLDHDALRRDKDALLAEIKE 142 69**************************************************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.3E-19	39	108	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.297	46	106	IPR001356	Homeobox domain
SMART	SM00389	2.1E-18	49	110	IPR001356	Homeobox domain
CDD	cd00086	6.57E-18	51	107	No hit	No description
Pfam	PF00046	3.0E-16	51	104	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.3E-19	53	113	IPR009057	Homeodomain-like
PRINTS	PR00031	9.5E-6	77	86	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	81	104	IPR017970	Homeobox, conserved site
PRINTS	PR00031	9.5E-6	86	102	IPR000047	Helix-turn-helix motif
Pfam	PF02183	5.4E-17	106	147	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: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: 277 aa Download sequence Send to blast
MKRPGGAGGG GGSPSLVTMA NSSDDGYGGV GMEAEGDVEE EMMACGGGGE KKRRLSVEQV 60 RALERSFEVE NKLEPERKAR LARDLGLQPR QVAVWFQNRR ARWKTKQLER DYAALRHSYD 120 SLRLDHDALR RDKDALLAEI KELKAKLGDE EAAASFTSVK EEPAASDGPP AAGFGSSDSD 180 SSAVLNDVDA AGAAPAATDA LAPEACTFLG APPAAGAGAG AAAAASHEEV FFHGNFLKVE 240 EDETGFLDDD EPCGGFFADD QPPPLSSWWA EPTEHWN

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	75	81	ERKARLA
2	98	106	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

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	AK099710	0.0	AK099710.1 Oryza sativa Japonica Group cDNA clone:J013077J22, full insert sequence.
GenBank	AK105484	0.0	AK105484.1 Oryza sativa Japonica Group cDNA clone:001-127-B05, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015612509.1	0.0	homeobox-leucine zipper protein HOX4
Swissprot	Q6K498	0.0	HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
Swissprot	Q9XH37	0.0	HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBL	A0A0E0IL30	0.0	A0A0E0IL30_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0QSM3	0.0	A0A0E0QSM3_ORYRU; Uncharacterized protein
TrEMBL	B8BCN8	0.0	B8BCN8_ORYSI; Uncharacterized protein
STRING	ORUFI09G14530.1	0.0	(Oryza rufipogon)
STRING	OS09T0470500-01	0.0	(Oryza sativa)
STRING	ONIVA09G13990.1	0.0	(Oryza nivara)

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-39	homeobox protein 16

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]