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

OB01G10540.1

Common Name

LOC102708562

Organism

Oryza brachyantha

Taxonomic ID

4533

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: 814aa MW: 89816.8 Da PI: 4.6926

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB01G10540.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	37.5	4e-12	618	664	6	52
S--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 6 tftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 f + + L+e+F++++yps++++e LA++lgLt +qV+ WF R OB01G10540.1 618 HFGPAINQKLKEYFKEDPYPSRTTKENLAQELGLTFNQVTKWFSSTR 664 566666789**********************************8776 PP
2	PHD	42	2.1e-14	246	301	1	51
SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS PHD 1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 +C++C++ + +++++lCdg C++ fH++Cl+++l e +p g wlC+ C++k OB01G10540.1 246 FCAICSSkdVTLKNDIILCDGiCDRGFHQYCLNPPLLAEHIPPGdeGWLCPACDCK 301 7****64445****88****************9999*****985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	1.48E-14	236	304	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	1.2E-13	242	301	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	11.065	244	301	IPR019787	Zinc finger, PHD-finger
Pfam	PF00628	1.1E-11	246	301	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	9.2E-11	246	299	IPR001965	Zinc finger, PHD-type
CDD	cd15504	6.27E-26	246	298	No hit	No description
PROSITE pattern	PS01359	0	247	298	IPR019786	Zinc finger, PHD-type, conserved site
Gene3D	G3DSA:1.10.10.60	3.4E-12	609	664	IPR009057	Homeodomain-like
PROSITE profile	PS50071	13.604	610	670	IPR001356	Homeobox domain
SMART	SM00389	1.0E-11	613	674	IPR001356	Homeobox domain
CDD	cd00086	3.85E-12	615	668	No hit	No description
SuperFamily	SSF46689	1.58E-11	616	677	IPR009057	Homeodomain-like
Pfam	PF00046	1.3E-9	618	664	IPR001356	Homeobox domain

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: 814 aa Download sequence Send to blast
MDKTTTSELV LDNDNAGSNA ASAQEPLTTN GKTDGGRNRY KQTAKRGRKG SQISPSKTYP 60 LRSSHSSVRL LRSASKKKNE TPTVTTNDNT AVQRVAKKRK RSKPLRPAPS RGLRSASEKK 120 NKAHNELVND SAGVQPAEKK RKVGRPPKGG TPKNDYLSIR KRVRYILNRM NYEQSLIQAY 180 ASEGWKGQSL EKIRPEKELE RAKAEILRCK LRIREAFQSL DSLLSEGKLE ESLFDSAGEI 240 SSEDIFCAIC SSKDVTLKND IILCDGICDR GFHQYCLNPP LLAEHIPPGD EGWLCPACDC 300 KLDCIDVLNE LQGVKLSIHD SWEKVFPEAA SFVNGSKQID ASDLPSDDSA DNDYDPALPQ 360 GHKVDEDQSS GEDGDEGSES DDSSSDEDSD SSENEKSKTS KNERTVDDLG LPSEDSEDGD 420 FDPAGPDSDK EQNDDESNSD QSDESDFTSD SDDFCAEIAK SCVQDETSGP SLSQIRTVDH 480 TVGSAFDSEP TAENSNLAFM EAELEQDMVL PVSSKRQVER LDYKQLYDEA YGKASSDSSD 540 DEEWSGDSAH QEENLEDSET DLLAESPQRG KNFTRRAAVR HQNNEHTPQN VRSGGSVSDQ 600 QTEVLCSDSN GSAARKRHFG PAINQKLKEY FKEDPYPSRT TKENLAQELG LTFNQVTKWF 660 SSTRHYSRVA ATKKENNIEN QTSENNNSNT VDSIELRGSN EMVMEKASVD RNDMASEDWM 720 GQSNLNEGFP LGKDSSFGQN VVATPVVHQD CPTVSKEIGS PKCGSRENQG NDSSSNVGTP 780 KVKSSEKTIS GLENADEARR KAVQRELRKM KTGR

Sequence ? help Back to Top

Protein Sequence Length: 814 aa Download sequence Send to blast

MDKTTTSELV LDNDNAGSNA ASAQEPLTTN GKTDGGRNRY KQTAKRGRKG SQISPSKTYP  60
LRSSHSSVRL LRSASKKKNE TPTVTTNDNT AVQRVAKKRK RSKPLRPAPS RGLRSASEKK  120
NKAHNELVND SAGVQPAEKK RKVGRPPKGG TPKNDYLSIR KRVRYILNRM NYEQSLIQAY  180
ASEGWKGQSL EKIRPEKELE RAKAEILRCK LRIREAFQSL DSLLSEGKLE ESLFDSAGEI  240
SSEDIFCAIC SSKDVTLKND IILCDGICDR GFHQYCLNPP LLAEHIPPGD EGWLCPACDC  300
KLDCIDVLNE LQGVKLSIHD SWEKVFPEAA SFVNGSKQID ASDLPSDDSA DNDYDPALPQ  360
GHKVDEDQSS GEDGDEGSES DDSSSDEDSD SSENEKSKTS KNERTVDDLG LPSEDSEDGD  420
FDPAGPDSDK EQNDDESNSD QSDESDFTSD SDDFCAEIAK SCVQDETSGP SLSQIRTVDH  480
TVGSAFDSEP TAENSNLAFM EAELEQDMVL PVSSKRQVER LDYKQLYDEA YGKASSDSSD  540
DEEWSGDSAH QEENLEDSET DLLAESPQRG KNFTRRAAVR HQNNEHTPQN VRSGGSVSDQ  600
QTEVLCSDSN GSAARKRHFG PAINQKLKEY FKEDPYPSRT TKENLAQELG LTFNQVTKWF  660
SSTRHYSRVA ATKKENNIEN QTSENNNSNT VDSIELRGSN EMVMEKASVD RNDMASEDWM  720
GQSNLNEGFP LGKDSSFGQN VVATPVVHQD CPTVSKEIGS PKCGSRENQG NDSSSNVGTP  780
KVKSSEKTIS GLENADEARR KAVQRELRKM KTGR

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	96	101	KKRKRS
2	96	103	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB01G10540.1

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_006643653.1	0.0	PREDICTED: homeobox protein HOX1A isoform X1
Refseq	XP_006643654.1	0.0	PREDICTED: homeobox protein HOX1A isoform X1
Swissprot	Q8H991	0.0	HAZ1_ORYSJ; Homeobox protein HAZ1
TrEMBL	J3KVP8	0.0	J3KVP8_ORYBR; Uncharacterized protein
STRING	OB01G10540.1	0.0	(Oryza brachyantha)

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	5e-79	Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain

Link Out ? help Back to Top
Entrez Gene	102708562

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]