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

KN538722.1_FGP037

Organism

Oryza longistaminata

Taxonomic ID

4528

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: 1199aa MW: 132841 Da PI: 5.4859

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN538722.1_FGP037	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	34.1	4.7e-11	650	690	12	52
HHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 12 leeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 + L+++F++++yps++++e LA++lgLt +qV+ WF R KN538722.1_FGP037 650 NQKLKAHFKEDPYPSRATKENLAHELGLTFNQVTKWFSSTR 690 589**********************************8776 PP
2	PHD	42.1	2e-14	274	329	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 KN538722.1_FGP037 274 FCAACGSkdVTLKNDIILCDGiCDRGFHQYCLNPPLLAEDIPQGdeGWLCPACDCK 329 7****64445****88*****************999*****985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	2.21E-14	264	332	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	1.5E-13	270	328	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	10.941	272	329	IPR019787	Zinc finger, PHD-finger
CDD	cd15504	1.10E-25	274	326	No hit	No description
Pfam	PF00628	1.1E-11	274	329	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	2.4E-10	274	327	IPR001965	Zinc finger, PHD-type
PROSITE pattern	PS01359	0	275	326	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE profile	PS50071	13.038	636	696	IPR001356	Homeobox domain
SMART	SM00389	1.7E-11	639	700	IPR001356	Homeobox domain
CDD	cd00086	3.75E-12	641	694	No hit	No description
SuperFamily	SSF46689	5.13E-11	641	698	IPR009057	Homeodomain-like
Pfam	PF00046	1.5E-8	650	690	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.4E-11	650	705	IPR009057	Homeodomain-like
Gene3D	G3DSA:3.40.50.1110	3.0E-84	872	1188	IPR013830	SGNH hydrolase-type esterase domain
CDD	cd01837	5.73E-122	872	1180	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1199 aa Download sequence Send to blast
MSVPWPFPHN YTTLHMLIYV DCILLGYNPC LKVFIQDFPK LIKTDLSVTT EEEPLTTNGK 60 TSGVRNRYKQ TVKRGRKGSQ ISPNKTYPLR SSHSNVRVLR SASKKKNETP IVPTNDNTAV 120 QRVAKKRKRS KPLKPAPSRV LRSTSEKKNK AHNELLNDGA GVQPAEKKRK VGRPPKGGTP 180 KDDYLMIRKR VRYVLNRMNY EQSLIQAYAS EGWKGQSLEK IRPEKELERA KVEILRCKSR 240 IREAFRNLDS LLSEGKLDES MFDSAGEISS EDIFCAACGS KDVTLKNDII LCDGICDRGF 300 HQYCLNPPLL AEDIPQGDEG WLCPACDCKI DCIDVLNELQ GVKLSIHDSW EKVFPEAASF 360 LNGSKQIDAS DLPSDDSVDN DYDPTLAQGH KVDEEKSSGE DGGEGLDSDD SSSEDSESSE 420 KEKSKTSQNG RTVDDLGLPS EDSEDGDFDP AGPDSDKEQN DESNSDQSDE SDFTSDSDDF 480 CAEIAKSCGQ DEISGPSSSQ IRTVDRTDGS GFDGEPNAEN SNLAFMETEL EQDMVLPISS 540 KRQVERLDYK KLYNEAYGKS SSDSSDDEEW YGNSTPEKGN LEDSETDSLS ESPQGGKGFS 600 RRAPVRYHNN EHTPQNVRPG GSVSDQQTEV LCSNSNGSTA KNRHFGPAIN QKLKAHFKED 660 PYPSRATKEN LAHELGLTFN QVTKWFSSTR HYARVAATKK ENNIENHTAE NNNNSNTVDS 720 IQLRGSNDIV SVDRNDMVSE ERTGQSNLNE GTPLRSDTSC GQSVAVTPMV HPENQGNDSS 780 SNVRTPNAKS AEKLIPGLEN SDEARRKAVQ RELRKMKTGR RPCLLITSDL EFETQIKMAC 840 KKQKSKLMAF WLAMVVVVVV VVGRCRGDAV QFIFGDSLSD VGNNDYLTKS LARAALPWYG 900 IDFDTGMPNG RFCNGRTVAD IVGDKMGLPR PPAFLDPSLD ENVILKRGVN FASGGGGILN 960 ETSSLFIQRF SLYKQIELFQ GTQEFMRRKV GKAAADKLFG EAYYVVAMGA NDFINNYLLP 1020 VYSDSWTYNG DAFVRYMVTT LEAQLRLLPA LGARRLTFFG LGPMGCIPLQ RILTSTGACQ 1080 EPTNALARSF NEQAGAAVAR LSSSLANATF RFGEAYDYFQ DIIDRPAAHG FNNSRAPCCS 1140 LGRVRPTLTC TPLSTLCKDR SQYVFWDEYH PTDRANELIA LETLRKLNIT VSANNSTST

Sequence ? help Back to Top

Protein Sequence Length: 1199 aa Download sequence Send to blast

MSVPWPFPHN YTTLHMLIYV DCILLGYNPC LKVFIQDFPK LIKTDLSVTT EEEPLTTNGK  60
TSGVRNRYKQ TVKRGRKGSQ ISPNKTYPLR SSHSNVRVLR SASKKKNETP IVPTNDNTAV  120
QRVAKKRKRS KPLKPAPSRV LRSTSEKKNK AHNELLNDGA GVQPAEKKRK VGRPPKGGTP  180
KDDYLMIRKR VRYVLNRMNY EQSLIQAYAS EGWKGQSLEK IRPEKELERA KVEILRCKSR  240
IREAFRNLDS LLSEGKLDES MFDSAGEISS EDIFCAACGS KDVTLKNDII LCDGICDRGF  300
HQYCLNPPLL AEDIPQGDEG WLCPACDCKI DCIDVLNELQ GVKLSIHDSW EKVFPEAASF  360
LNGSKQIDAS DLPSDDSVDN DYDPTLAQGH KVDEEKSSGE DGGEGLDSDD SSSEDSESSE  420
KEKSKTSQNG RTVDDLGLPS EDSEDGDFDP AGPDSDKEQN DESNSDQSDE SDFTSDSDDF  480
CAEIAKSCGQ DEISGPSSSQ IRTVDRTDGS GFDGEPNAEN SNLAFMETEL EQDMVLPISS  540
KRQVERLDYK KLYNEAYGKS SSDSSDDEEW YGNSTPEKGN LEDSETDSLS ESPQGGKGFS  600
RRAPVRYHNN EHTPQNVRPG GSVSDQQTEV LCSNSNGSTA KNRHFGPAIN QKLKAHFKED  660
PYPSRATKEN LAHELGLTFN QVTKWFSSTR HYARVAATKK ENNIENHTAE NNNNSNTVDS  720
IQLRGSNDIV SVDRNDMVSE ERTGQSNLNE GTPLRSDTSC GQSVAVTPMV HPENQGNDSS  780
SNVRTPNAKS AEKLIPGLEN SDEARRKAVQ RELRKMKTGR RPCLLITSDL EFETQIKMAC  840
KKQKSKLMAF WLAMVVVVVV VVGRCRGDAV QFIFGDSLSD VGNNDYLTKS LARAALPWYG  900
IDFDTGMPNG RFCNGRTVAD IVGDKMGLPR PPAFLDPSLD ENVILKRGVN FASGGGGILN  960
ETSSLFIQRF SLYKQIELFQ GTQEFMRRKV GKAAADKLFG EAYYVVAMGA NDFINNYLLP  1020
VYSDSWTYNG DAFVRYMVTT LEAQLRLLPA LGARRLTFFG LGPMGCIPLQ RILTSTGACQ  1080
EPTNALARSF NEQAGAAVAR LSSSLANATF RFGEAYDYFQ DIIDRPAAHG FNNSRAPCCS  1140
LGRVRPTLTC TPLSTLCKDR SQYVFWDEYH PTDRANELIA LETLRKLNIT VSANNSTST

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	124	129	KKRKRS
2	124	131	KKRKRSKP
3	805	821	RKAVQRELRKMKTGRRP

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	KN538722.1_FGP037

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	5e-84	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]