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

ORUFI06G08550.2

Organism

Oryza rufipogon

Taxonomic ID

4529

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

Family

HB-PHD

Protein Properties

Length: 885aa MW: 97350 Da PI: 5.9409

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI06G08550.2	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	35.1	2.2e-11	715	755	12	52
HHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 12 leeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 + L+++F++++yps++++e LA++lgLt +qV+ WF R ORUFI06G08550.2 715 NQKLKAHFKEDPYPSRATKENLAQELGLTFNQVTKWFSSTR 755 589**********************************8776 PP
2	PHD	42.6	1.4e-14	339	394	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 ORUFI06G08550.2 339 FCAACGSkdVTLKNDIILCDGiCDRGFHQYCLNPPLLAEDIPQGdeGWLCPACDCK 394 7****64445****88*****************999*****985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	1.59E-14	329	397	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	1.1E-13	335	393	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	10.941	337	394	IPR019787	Zinc finger, PHD-finger
CDD	cd15504	7.01E-26	339	391	No hit	No description
Pfam	PF00628	7.5E-12	339	394	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	2.4E-10	339	392	IPR001965	Zinc finger, PHD-type
PROSITE pattern	PS01359	0	340	391	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE profile	PS50071	13.183	701	761	IPR001356	Homeobox domain
SMART	SM00389	7.1E-12	704	765	IPR001356	Homeobox domain
CDD	cd00086	2.33E-12	706	759	No hit	No description
SuperFamily	SSF46689	2.31E-11	706	768	IPR009057	Homeodomain-like
Pfam	PF00046	7.7E-9	715	755	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.9E-12	715	770	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: 885 aa Download sequence Send to blast
MSLPRRLLLR RRRAAAVQSG GARLRRRRSR RSPSLLLPSF FLPTPTPGDR GLQLRAARGG 60 GGGGRTAAEA AEDERDNGGC ARRRLTAVKA IICMDKTTTS DLVLDNDNIG SNAGSAQEPL 120 TTNGKTSGVR NRYKQTVKRG RKGSQISPSK TYPLRSSHSN VRVLRSASKK KNETPIVPTN 180 DNTAVQRVAK KRKRSKPLRP APSRVLRSTS EKKNKAHNEL LNDGAGVQPA EKKRKVGRPP 240 KGGTPKDDYL MIRKRVRYVL NRMNYEQSLI QAYASEGWKG QSLEKIRPEK ELERAKVEIL 300 RCKSRIREAF RNLDSLLSEG KLDESMFDSA GEISSEDIFC AACGSKDVTL KNDIILCDGI 360 CDRGFHQYCL NPPLLAEDIP QGDEGWLCPA CDCKIDCIDV LNELQGVKLS IHDSWEKVFP 420 EAASFLNGSK QIDASDLPSD DSADNDYDPT LAQGHKVDEE KSSGEDGGEG LDSDDSSSED 480 SESSEKEKSK TSQNGRTVDD LGLPSEDSED GDFDPAGPDS DKEQNDESNS DQSDESDFTS 540 DSDDFCAEIA KSCGQDEISG PSSSQIRTVD RTDGSGFDGE PNAENSNLAF METELEQDMV 600 LPISSKRQVE RLDYKKLYNE AYGKASSDSS DDEEWYGNST PEKGNLEDSE TDSLAESPQG 660 GKGFSRRAPV RYHNNEHTPQ NVRPGGSVSD QQTEVLCSNS NGSTAKNRHF GPAINQKLKA 720 HFKEDPYPSR ATKENLAQEL GLTFNQVTKW FSSTRHYARV AATKKENNIE NHTAENNNNT 780 NTVDSIQLRG SNDIVSVDRN DMVSEERTGQ SNLNEGTPLR SDTSCGQSVA VTPMVHPENQ 840 GNDSSSNVRT PNAKSAEKLI PGLENSDEAR RKAVQRELRK MKTGR

Sequence ? help Back to Top

Protein Sequence Length: 885 aa Download sequence Send to blast

MSLPRRLLLR RRRAAAVQSG GARLRRRRSR RSPSLLLPSF FLPTPTPGDR GLQLRAARGG  60
GGGGRTAAEA AEDERDNGGC ARRRLTAVKA IICMDKTTTS DLVLDNDNIG SNAGSAQEPL  120
TTNGKTSGVR NRYKQTVKRG RKGSQISPSK TYPLRSSHSN VRVLRSASKK KNETPIVPTN  180
DNTAVQRVAK KRKRSKPLRP APSRVLRSTS EKKNKAHNEL LNDGAGVQPA EKKRKVGRPP  240
KGGTPKDDYL MIRKRVRYVL NRMNYEQSLI QAYASEGWKG QSLEKIRPEK ELERAKVEIL  300
RCKSRIREAF RNLDSLLSEG KLDESMFDSA GEISSEDIFC AACGSKDVTL KNDIILCDGI  360
CDRGFHQYCL NPPLLAEDIP QGDEGWLCPA CDCKIDCIDV LNELQGVKLS IHDSWEKVFP  420
EAASFLNGSK QIDASDLPSD DSADNDYDPT LAQGHKVDEE KSSGEDGGEG LDSDDSSSED  480
SESSEKEKSK TSQNGRTVDD LGLPSEDSED GDFDPAGPDS DKEQNDESNS DQSDESDFTS  540
DSDDFCAEIA KSCGQDEISG PSSSQIRTVD RTDGSGFDGE PNAENSNLAF METELEQDMV  600
LPISSKRQVE RLDYKKLYNE AYGKASSDSS DDEEWYGNST PEKGNLEDSE TDSLAESPQG  660
GKGFSRRAPV RYHNNEHTPQ NVRPGGSVSD QQTEVLCSNS NGSTAKNRHF GPAINQKLKA  720
HFKEDPYPSR ATKENLAQEL GLTFNQVTKW FSSTRHYARV AATKKENNIE NHTAENNNNT  780
NTVDSIQLRG SNDIVSVDRN DMVSEERTGQ SNLNEGTPLR SDTSCGQSVA VTPMVHPENQ  840
GNDSSSNVRT PNAKSAEKLI PGLENSDEAR RKAVQRELRK MKTGR

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	10	27	RRRAAAVQSGGARLRRRR
2	22	29	RLRRRRSR
3	189	194	KKRKRS
4	189	196	KKRKRSKP

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	A0A0E0PVF1	0.0	A0A0E0PVF1_ORYRU; Uncharacterized protein
STRING	ORUFI06G08550.2	0.0	(Oryza rufipogon)

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]