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; Pooideae; Brachypodieae; Brachypodium

Family

HD-ZIP

Protein Properties

Length: 251aa MW: 27304.2 Da PI: 4.3442

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bradi4g32737.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	60.4	2.9e-19	36	89	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k++++++eq+++Le+ Fe ++++ e++++LA+ lgL+ rqV vWFqNrRa++k Bradi4g32737.1.p 36 KKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 89 45689************************************************9 PP
2	HD-ZIP_I/II	133.6	7.1e-43	35	127	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 ekkrrls+eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++ydal+ ++++L++++++L +e+ke Bradi4g32737.1.p 35 EKKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYNALRHSYDALRLDHDALRRDKDALLAEIKE 127 69**************************************************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	17.475	31	91	IPR001356	Homeobox domain
SMART	SM00389	1.5E-18	34	95	IPR001356	Homeobox domain
SuperFamily	SSF46689	6.27E-20	35	103	IPR009057	Homeodomain-like
Pfam	PF00046	1.4E-16	36	89	IPR001356	Homeobox domain
CDD	cd00086	6.85E-19	36	92	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.0E-20	37	98	IPR009057	Homeodomain-like
PRINTS	PR00031	8.1E-6	62	71	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	66	89	IPR017970	Homeobox, conserved site
PRINTS	PR00031	8.1E-6	71	87	IPR000047	Helix-turn-helix motif
Pfam	PF02183	1.6E-17	91	132	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: 251 aa Download sequence Send to blast
MANPNDMDYG VVGMETEGDA EEEMMACGGG GGGGEKKRRL SAEQVRALER SFEVENKLEP 60 ERKARLARDL GLQPRQVAVW FQNRRARWKT KQLERDYNAL RHSYDALRLD HDALRRDKDA 120 LLAEIKELKG KLGDEDAAAS FTSVKEEPAA SDGPPPAGMG YSDSDSSAVV NDTDATGATP 180 PAELPAPEVG TLLVAPCAAA AGHGEVFFHG NFLKVEEDET GFLDDDEPCG GFFADEPPLA 240 WWTDPTEHWK *

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	60	66	ERKARLA
2	83	91	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	Bradi4g32737.1.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	AK354063	0.0	AK354063.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1004L21.
GenBank	AK355887	0.0	AK355887.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1027I19.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010238252.1	0.0	homeobox-leucine zipper protein HOX4
Swissprot	Q6K498	1e-124	HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
Swissprot	Q9XH37	1e-124	HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBL	I1IQY0	0.0	I1IQY0_BRADI; Uncharacterized protein
STRING	BRADI4G32737.1	0.0	(Brachypodium distachyon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3009	34	82
Representative plant	OGRP129	16	189

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G40060.1	1e-53	homeobox protein 16

Link Out ? help Back to Top
Phytozome	Bradi4g32737.1.p
Entrez Gene	100839857

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]