PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

BGIOSGA022583-PA

Common Name

OsI_22252

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

Taxonomic Lineage

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

Family

HB-PHD

Protein Properties

Length: 830aa MW: 92098.1 Da PI: 5.025

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA022583-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	35.2	2.1e-11	660	700	12	52
HHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 12 leeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 + L+++F++++yps++++e LA++lgLt +qV+ WF R BGIOSGA022583-PA 660 NQKLKAHFKEDPYPSRATKENLAQELGLTFNQVTKWFSSTR 700 589**********************************8776 PP
2	PHD	42.7	1.3e-14	284	339	1	51
SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS PHD 1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 +C++Cg+ + +++++lCdg C++ fH++Cl+++l e++p+g wlC+ C++k BGIOSGA022583-PA 284 FCAACGSkdVTLKNDIILCDGiCDRGFHQYCLNPPLLAEDIPQGdeGWLCPACDCK 339 7****64445****88*****************999*****985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	1.46E-14	274	342	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	9.8E-14	280	338	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	10.941	282	339	IPR019787	Zinc finger, PHD-finger
CDD	cd15504	3.76E-26	284	336	No hit	No description
SMART	SM00249	2.4E-10	284	337	IPR001965	Zinc finger, PHD-type
Pfam	PF00628	6.9E-12	284	339	IPR019787	Zinc finger, PHD-finger
PROSITE pattern	PS01359	0	285	336	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE profile	PS50071	13.183	646	706	IPR001356	Homeobox domain
SMART	SM00389	7.1E-12	649	710	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.14E-11	651	713	IPR009057	Homeodomain-like
CDD	cd00086	2.97E-12	651	704	No hit	No description
Pfam	PF00046	7.1E-9	660	700	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.6E-12	660	715	IPR009057	Homeodomain-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 830 aa Download sequence Send to blast
MTLRRYYKEQ GNVMPGEDFL ELDVVAHAHL SRLYLGYNPF LKAFIQDFPK LIKTDLSVPT 60 EEEPLTTNGK TSGVRNRYKQ TVKRGRKGSQ ISPSKTYPLR SSHSNVRVLR SASKKKNETP 120 IVPTNDNTAV QRVAKKRKRS KPLRPAPSRV LRSTSEKKNK AHNELLNDGA GVQPAEKKRK 180 VGRPPKGGTP KDDYLMIRKR VRYVLNRMNY EQSLIQAYAS EGWKGQSLEK IRPEKELERA 240 KVEILRCKSR IREAFRNLDS LLSEGKLDES MFDSAGEISS EDIFCAACGS KDVTLKNDII 300 LCDGICDRGF HQYCLNPPLL AEDIPQGDEG WLCPACDCKI DCIDVLNELQ GVKLSIHDSW 360 EKVFPEAASF LNGSKQIDAS DLPSDDSADN DYDPTLAQGH KVDEEKSSGE DGGEGLDSDD 420 SSSEDSESSE KEKSKTSQNG RTVDDLGLPS EDSEDGDFDP AGPDSDKEQN DESNSDQSDE 480 SDFTSDSDDF CAEIAKSCGQ DEISGPSSSQ IRTVDRTDGS GFDGEPNAEN SNLAFMETEL 540 EQDMVLPISS KRQVERLDYK KLYNEAYGKA SSDSSDDEEW YGNSTPEKGN LEDSETDSLA 600 ESPQGGKGFS RRAPVRYHNN EHTPQNVRPG GSVSDQQTEV LCSNSNGSTA KNRHFGPAIN 660 QKLKAHFKED PYPSRATKEN LAQELGLTFN QVTKWFSSTR HYARVAATKK ENNIENHTAE 720 NNNNTNTVDS IQLRGSNDIV SVDRNDMVSE ERTGQSNLNE GTPLRSDTSC GQSVAVTPMV 780 HPENQGNDSS SNVRTPNAKS AEKLIPGLEN SDEARRKAVQ RELRKMKTGR

Sequence ? help Back to Top

Protein Sequence Length: 830 aa Download sequence Send to blast

MTLRRYYKEQ GNVMPGEDFL ELDVVAHAHL SRLYLGYNPF LKAFIQDFPK LIKTDLSVPT  60
EEEPLTTNGK TSGVRNRYKQ TVKRGRKGSQ ISPSKTYPLR SSHSNVRVLR SASKKKNETP  120
IVPTNDNTAV QRVAKKRKRS KPLRPAPSRV LRSTSEKKNK AHNELLNDGA GVQPAEKKRK  180
VGRPPKGGTP KDDYLMIRKR VRYVLNRMNY EQSLIQAYAS EGWKGQSLEK IRPEKELERA  240
KVEILRCKSR IREAFRNLDS LLSEGKLDES MFDSAGEISS EDIFCAACGS KDVTLKNDII  300
LCDGICDRGF HQYCLNPPLL AEDIPQGDEG WLCPACDCKI DCIDVLNELQ GVKLSIHDSW  360
EKVFPEAASF LNGSKQIDAS DLPSDDSADN DYDPTLAQGH KVDEEKSSGE DGGEGLDSDD  420
SSSEDSESSE KEKSKTSQNG RTVDDLGLPS EDSEDGDFDP AGPDSDKEQN DESNSDQSDE  480
SDFTSDSDDF CAEIAKSCGQ DEISGPSSSQ IRTVDRTDGS GFDGEPNAEN SNLAFMETEL  540
EQDMVLPISS KRQVERLDYK KLYNEAYGKA SSDSSDDEEW YGNSTPEKGN LEDSETDSLA  600
ESPQGGKGFS RRAPVRYHNN EHTPQNVRPG GSVSDQQTEV LCSNSNGSTA KNRHFGPAIN  660
QKLKAHFKED PYPSRATKEN LAQELGLTFN QVTKWFSSTR HYARVAATKK ENNIENHTAE  720
NNNNTNTVDS IQLRGSNDIV SVDRNDMVSE ERTGQSNLNE GTPLRSDTSC GQSVAVTPMV  780
HPENQGNDSS SNVRTPNAKS AEKLIPGLEN SDEARRKAVQ RELRKMKTGR

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	134	139	KKRKRS
2	134	141	KKRKRSKP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.17425	0.0	callus\| flower\| leaf\| panicle\| root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	115467229	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the outer layers of globular embryos. {ECO:0000269\|PubMed:15094187}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, leaves, stems, panicle and seeds. {ECO:0000269\|PubMed:21951842}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor involved in the regulation of gibberrelin (GA) signaling. Binds to the 5'-GATC-3' motif of HD16/EL1 promoter. Functions as a positive regulator of GA signaling by suppressing the expression of HD16/EL1, a negative regulator of GA signaling. {ECO:0000269\|PubMed:21951842}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by gibberellin. {ECO:0000269\|PubMed:21951842}.

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	AB081340	0.0	AB081340.1 Oryza sativa Japonica Group HAZ1 mRNA for PHD-finger family homeodomain protein, complete cds.
GenBank	AK121314	0.0	AK121314.1 Oryza sativa Japonica Group cDNA clone:J023113A13, full insert sequence.
GenBank	FJ940197	0.0	FJ940197.1 Oryza sativa Japonica Group clone KCS150D11 PHD-finger family homeodomain protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015644127.1	0.0	homeobox protein HAZ1 isoform X1
Swissprot	Q8H991	0.0	HAZ1_ORYSJ; Homeobox protein HAZ1
TrEMBL	B8B494	0.0	B8B494_ORYSI; Uncharacterized protein
STRING	OS06T0229300-01	0.0	(Oryza sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4393	37	68

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G19510.1	3e-86	Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain

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] Wen BQ,Xing MQ,Zhang H,Dai C,Xue HW Rice homeobox transcription factor HOX1a positively regulates gibberellin responses by directly suppressing EL1. J Integr Plant Biol, 2011. 53(11): p. 869-78 [PMID:21951842]