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; Leersia

Family

HD-ZIP

Protein Properties

Length: 92aa MW: 10379.7 Da PI: 5.232

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR01G03690.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	52.8	6.8e-17	32	83	3	54
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRak 54 k+++++ eq ++Le+ F+ ++++ e+++ LA+ lgL+ rqV vWFqNrRa+ LPERR01G03690.1 32 KKRRLSVEQERALERSFKVENKLEPERKAWLARDLGLQPRQVAVWFQNRRAR 83 456899*********************************************8 PP
2	HD-ZIP_I/II	86.9	2.7e-28	31	84	1	54
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARt 54 ekkrrls eq ++LE+sF+ e+kLeperK+ lar+LglqprqvavWFqnrRAR LPERR01G03690.1 31 EKKRRLSVEQERALERSFKVENKLEPERKAWLARDLGLQPRQVAVWFQNRRARG 84 69***************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	6.68E-17	17	83	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.2E-17	30	81	IPR009057	Homeodomain-like
SMART	SM00389	1.0E-14	30	91	IPR001356	Homeobox domain
PROSITE profile	PS50071	14.819	31	87	IPR001356	Homeobox domain
Pfam	PF00046	3.1E-14	32	83	IPR001356	Homeobox domain
CDD	cd00086	1.62E-14	32	83	No hit	No description
PRINTS	PR00031	9.8E-6	58	67	IPR000047	Helix-turn-helix motif
PRINTS	PR00031	9.8E-6	67	83	IPR000047	Helix-turn-helix motif

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 92 aa Download sequence Send to blast
MLNSSDDGYG GVGMEGEVDA EDEMMACGGG EKKRRLSVEQ ERALERSFKV ENKLEPERKA 60 WLARDLGLQP RQVAVWFQNR RARGGLQLLA WA

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR01G03690.1

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	AF145728	2e-96	AF145728.1 Oryza sativa homeodomain leucine zipper protein (Oshox4) mRNA, complete cds.
GenBank	AK099710	2e-96	AK099710.1 Oryza sativa Japonica Group cDNA clone:J013077J22, full insert sequence.
GenBank	AK105484	2e-96	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_006660730.1	3e-42	PREDICTED: homeobox-leucine zipper protein HOX4 isoform X2
Refseq	XP_015612509.1	3e-42	homeobox-leucine zipper protein HOX4
Refseq	XP_015696875.1	2e-42	PREDICTED: homeobox-leucine zipper protein HOX4 isoform X1
Swissprot	Q6K498	2e-43	HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
Swissprot	Q9XH37	2e-43	HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBL	A0A0D9UX36	6e-59	A0A0D9UX36_9ORYZ; Uncharacterized protein
STRING	LPERR01G03690.1	1e-59	(Leersia perrieri)

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
AT2G22430.1	4e-24	homeobox protein 6

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]