PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Gene Ontology |

Function |

Regulation |

Publication

Basic Information? help Back to Top

TF ID

OMERI04G18610.2

Organism

Oryza meridionalis

Taxonomic ID

40149

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

HD-ZIP

Protein Properties

Length: 817aa MW: 87063.4 Da PI: 5.897

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI04G18610.2	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	70.9	1.5e-22	122	177	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t++q++eLe++F+++++p++++r+eL+k+lgL+ rqVk+WFqNrR+++k OMERI04G18610.2 122 KKRYHRHTPQQIQELEAMFKECPHPDEKQRAELSKRLGLEPRQVKFWFQNRRTQMK 177 688999***********************************************998 PP
2	START	159.5	2.5e-50	333	567	2	206
HHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS......SCEEEEEEEECCSCH.HHHHHHHHCCCGGCT-TT-S.... CS START 2 laeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.....dsgealrasgvvdmv.lallveellddkeqWdetla.... 77 la +a++elvk+a+ ++p+W + es+n +e+l +f++ + + +ea+r+sg+v+ + a lve+l+d ++W+ ++ OMERI04G18610.2 333 LAMSAMDELVKMAQMGDPLWIPGAsvpslpakESLNFEEYLNTFPPCIGvkpegYVSEASRESGIVIIDdGAALVETLMDEVRRWSDMFScmia 426 67899*************9776778999************9999**********998651568***************** PP EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--......-TTSEE-EESSEEEEEEEECT CS START 78 kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe.....sssvvRaellpSgiliepksn 159 k +t+e is+g gal lm+aelq+lsplvp R++ f+R+++ql +g+w++vdvS d+ + s + +++lpSg+++++++n OMERI04G18610.2 427 KTSTTEEISTGvagsrnGALLLMQAELQVLSPLVPiREVKFLRFSKQLADGVWAVVDVSADELMRDQGitsasSTANMNCRRLPSGCVLQDTPN 520 ********************************************************9987666666454555689*********** PP CEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 160 ghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 g kvtwveh++++++++h l+r+l++sgla ga +w atlqrqce+ OMERI04G18610.2 521 GFVKVTWVEHTEYDEASVHPLYRPLLRSGLALGAGRWIATLQRQCEC 567 *******************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.4E-24	107	179	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.09E-21	109	177	IPR009057	Homeodomain-like
PROSITE profile	PS50071	18.366	119	179	IPR001356	Homeobox domain
SMART	SM00389	3.2E-20	120	183	IPR001356	Homeobox domain
CDD	cd00086	1.14E-20	121	177	No hit	No description
Pfam	PF00046	7.6E-20	122	177	IPR001356	Homeobox domain
PRINTS	PR00031	8.8E-5	150	159	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	154	177	IPR017970	Homeobox, conserved site
PRINTS	PR00031	8.8E-5	159	175	IPR000047	Helix-turn-helix motif
PROSITE profile	PS50848	42.123	323	570	IPR002913	START domain
SuperFamily	SSF55961	5.22E-23	326	567	No hit	No description
CDD	cd08875	5.52E-104	327	566	No hit	No description
SMART	SM00234	1.4E-39	332	567	IPR002913	START domain
Pfam	PF01852	6.5E-42	333	567	IPR002913	START domain
SuperFamily	SSF55961	5.63E-15	587	782	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 817 aa Download sequence Send to blast
MSFGVGDHFG DGVVPAGMQF PYSSAGPGVF ASSPALSLAL ADAVAGRNSG GGGKMVTVAH 60 GGVGGGGGGH AKARDALEVE NEMSRSGSDH LDVVSCGDAG GGGGGGDDDD EDAEHGNPPK 120 RKKRYHRHTP QQIQELEAMF KECPHPDEKQ RAELSKRLGL EPRQVKFWFQ NRRTQMKMQL 180 ERHENALLKQ ENDKLRSENL SIREATSNAV CVGCGGPAIL GKVSLEEHHL RVENARLKDE 240 LSRVCTLAAK FLGKPISVMA PPQMHQPHPV PGSSLEFAVG GIGSMPSATI PISTITDFAG 300 AMSSSMGTVI TPMKSEAEPP AMAGIDKSLF LELAMSAMDE LVKMAQMGDP LWIPGASVPS 360 LPAKESLNFE EYLNTFPPCI GVKPEGYVSE ASRESGIVII DDGAALVETL MDEVRRWSDM 420 FSCMIAKTST TEEISTGVAG SRNGALLLMQ AELQVLSPLV PIREVKFLRF SKQLADGVWA 480 VVDVSADELM RDQGITSASS TANMNCRRLP SGCVLQDTPN GFVKVTWVEH TEYDEASVHP 540 LYRPLLRSGL ALGAGRWIAT LQRQCECLAL LMSSIALPEN DSSAIHPEGK RSMLKLARRM 600 TDNFCAGVST SSTHEWSKLV GLTGNIGEDV HVMARKSVDE PGTPPGVVLS AATSVWMPVM 660 SERLFNFLRN KGLRAEWDIL SNGGPMQEVT SIAKGQQNGN TPTKDKQNSM LILQETCADA 720 SGSMVVYAPV DIPAMHLVMS GGDSSCVALL PSGFAILPAG PSIGADHKMG GSLLTVAFQI 780 LANSQPSAKL TVESVETVSN LISCTIKKIK TALHCDV

Sequence ? help Back to Top

Protein Sequence Length: 817 aa Download sequence Send to blast

MSFGVGDHFG DGVVPAGMQF PYSSAGPGVF ASSPALSLAL ADAVAGRNSG GGGKMVTVAH  60
GGVGGGGGGH AKARDALEVE NEMSRSGSDH LDVVSCGDAG GGGGGGDDDD EDAEHGNPPK  120
RKKRYHRHTP QQIQELEAMF KECPHPDEKQ RAELSKRLGL EPRQVKFWFQ NRRTQMKMQL  180
ERHENALLKQ ENDKLRSENL SIREATSNAV CVGCGGPAIL GKVSLEEHHL RVENARLKDE  240
LSRVCTLAAK FLGKPISVMA PPQMHQPHPV PGSSLEFAVG GIGSMPSATI PISTITDFAG  300
AMSSSMGTVI TPMKSEAEPP AMAGIDKSLF LELAMSAMDE LVKMAQMGDP LWIPGASVPS  360
LPAKESLNFE EYLNTFPPCI GVKPEGYVSE ASRESGIVII DDGAALVETL MDEVRRWSDM  420
FSCMIAKTST TEEISTGVAG SRNGALLLMQ AELQVLSPLV PIREVKFLRF SKQLADGVWA  480
VVDVSADELM RDQGITSASS TANMNCRRLP SGCVLQDTPN GFVKVTWVEH TEYDEASVHP  540
LYRPLLRSGL ALGAGRWIAT LQRQCECLAL LMSSIALPEN DSSAIHPEGK RSMLKLARRM  600
TDNFCAGVST SSTHEWSKLV GLTGNIGEDV HVMARKSVDE PGTPPGVVLS AATSVWMPVM  660
SERLFNFLRN KGLRAEWDIL SNGGPMQEVT SIAKGQQNGN TPTKDKQNSM LILQETCADA  720
SGSMVVYAPV DIPAMHLVMS GGDSSCVALL PSGFAILPAG PSIGADHKMG GSLLTVAFQI  780
LANSQPSAKL TVESVETVSN LISCTIKKIK TALHCDV

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

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	AK111914	0.0	AK111914.1 Oryza sativa Japonica Group cDNA clone:J033128F17, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015637147.1	0.0	homeobox-leucine zipper protein ROC4
Swissprot	Q7Y0V9	0.0	ROC4_ORYSJ; Homeobox-leucine zipper protein ROC4
TrEMBL	A0A0E0DHD2	0.0	A0A0E0DHD2_9ORYZ; Uncharacterized protein
STRING	ONIVA04G20660.1	0.0	(Oryza nivara)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00730.1	0.0	HD-ZIP family protein

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] Wei J, et al. GL2-type homeobox gene Roc4 in rice promotes flowering time preferentially under long days by repressing Ghd7. Plant Sci., 2016. 252: p. 133-143 [PMID:27717449] Chou IT,Gasser CS Characterization of the cyclophilin gene family of Arabidopsis thaliana and phylogenetic analysis of known cyclophilin proteins. Plant Mol. Biol., 1997. 35(6): p. 873-92 [PMID:9426607]