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

RrC12745_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

HD-ZIP

Protein Properties

Length: 783aa MW: 87200.6 Da PI: 5.0437

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12745_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	65.7	6.2e-21	72	127	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t+ q+ee+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k RrC12745_p1 72 KKRYHRHTNRQIEEMEALFKQNPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 127 688999***********************************************998 PP
2	START	144.7	8.9e-46	279	508	1	206
HHHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS..........SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.... CS START 1 elaeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.........dsgealrasgvvdmvlallveellddkeqWdetla.... 77 e+a ++ qel k+ eep+W k +n++e+++ ++ ea++a +vv+m++ +lv +l+ +W+e++ RrC12745_p1 279 EIAVSCVQELAKMCNTEEPLWIKKKsdkmggevLCLNEEEYRR------LfpwpnnkgdFRREASKANAVVIMNSITLVDAFLNAD-KWSEMFCsiva 369 578899***************99444444433444555555......15555568999**********************.**99999 PP EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEE CS START 78 kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvt 165 +a+t++ issg g l lm+aelq+lsplvp R+ +f+Ry +q + g w+ivd +ds ++ + + ++ pSg++i++++ng+s+v RrC12745_p1 370 RAKTVQIISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnAENGNWAIVDFPIDSFHDQIQplsANTLHEYKRKPSGCIIQDMPNGYSQVK 467 ******************************************99*******997555433336666677889************** PP EEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 166 wvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 wvehv++++r++h+++ vksg+a+ga +w+ l+rqce+ RrC12745_p1 468 WVEHVEVNERHVHEIFSEYVKSGMAFGATRWLDVLERQCER 508 *************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.18E-20	64	130	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.2E-21	66	135	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.75	69	129	IPR001356	Homeobox domain
SMART	SM00389	6.4E-19	70	133	IPR001356	Homeobox domain
Pfam	PF00046	2.1E-18	72	127	IPR001356	Homeobox domain
CDD	cd00086	1.97E-19	72	130	No hit	No description
PROSITE pattern	PS00027	0	104	127	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	43.152	270	511	IPR002913	START domain
SuperFamily	SSF55961	2.47E-31	271	510	No hit	No description
CDD	cd08875	2.34E-105	274	507	No hit	No description
SMART	SM00234	2.7E-28	279	508	IPR002913	START domain
Pfam	PF01852	3.7E-38	280	508	IPR002913	START domain
SuperFamily	SSF55961	1.28E-12	542	757	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:0048497	Biological Process	maintenance of floral organ identity
GO:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 783 aa Download sequence Send to blast
MLTMGEDNEE HGMMSMSMLM MMGDGGVEEM MENGSAGGSF GSGSEQAEDP KSGNEFDVAE 60 LQDEEQPPPA KKKRYHRHTN RQIEEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ 120 NRRTQMKAQQ DRAENVMLRA DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI 180 ENCRLREELD RLCSIASRYT GRPMQSSQPL INPPPEVQHH QPSLELDMSI YGNFQENPCS 240 DMMLLPPQDT ACYLPVQTNN NSNGYNMLLA DEEKVIAMEI AVSCVQELAK MCNTEEPLWI 300 KKKSDKMGGE VLCLNEEEYR RLFPWPNNKG DFRREASKAN AVVIMNSITL VDAFLNADKW 360 SEMFCSIVAR AKTVQIISSG VSGASGSLLL MYAELQVLSP LVPTREAYFL RYVEQNAENG 420 NWAIVDFPID SFHDQIQPLS ANTLHEYKRK PSGCIIQDMP NGYSQVKWVE HVEVNERHVH 480 EIFSEYVKSG MAFGATRWLD VLERQCERMA SLMARNITDL GGYNSICGRE EEHDERMLKT 540 FCVNISTSNG QSWTALSETT KDTVRITTRK ACEPGQPTGV VLAAVSTTWL PFSHVKVFDL 600 LRHQHHHSLL EVLFNGSSPH EVAHIANGSQ PGNCISLLRI SVSSNSWHNV ELMLQESCID 660 NSGSLIVYSS VDVDSIQHAM NGEDPSGIPL LPLGFSIIPV NYPDQVEGVS VNSHPLPSCL 720 LTVGIQVLAS NVPTAKPNLS TVTTINNHLC SIVNQITSVL SSTVSPLIES SSAGDDAVAK 780 QGI

Sequence ? help Back to Top

Protein Sequence Length: 783 aa Download sequence Send to blast

MLTMGEDNEE HGMMSMSMLM MMGDGGVEEM MENGSAGGSF GSGSEQAEDP KSGNEFDVAE  60
LQDEEQPPPA KKKRYHRHTN RQIEEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ  120
NRRTQMKAQQ DRAENVMLRA DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI  180
ENCRLREELD RLCSIASRYT GRPMQSSQPL INPPPEVQHH QPSLELDMSI YGNFQENPCS  240
DMMLLPPQDT ACYLPVQTNN NSNGYNMLLA DEEKVIAMEI AVSCVQELAK MCNTEEPLWI  300
KKKSDKMGGE VLCLNEEEYR RLFPWPNNKG DFRREASKAN AVVIMNSITL VDAFLNADKW  360
SEMFCSIVAR AKTVQIISSG VSGASGSLLL MYAELQVLSP LVPTREAYFL RYVEQNAENG  420
NWAIVDFPID SFHDQIQPLS ANTLHEYKRK PSGCIIQDMP NGYSQVKWVE HVEVNERHVH  480
EIFSEYVKSG MAFGATRWLD VLERQCERMA SLMARNITDL GGYNSICGRE EEHDERMLKT  540
FCVNISTSNG QSWTALSETT KDTVRITTRK ACEPGQPTGV VLAAVSTTWL PFSHVKVFDL  600
LRHQHHHSLL EVLFNGSSPH EVAHIANGSQ PGNCISLLRI SVSSNSWHNV ELMLQESCID  660
NSGSLIVYSS VDVDSIQHAM NGEDPSGIPL LPLGFSIIPV NYPDQVEGVS VNSHPLPSCL  720
LTVGIQVLAS NVPTAKPNLS TVTTINNHLC SIVNQITSVL SSTVSPLIES SSAGDDAVAK  780
QGI

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	AC189245	0.0	AC189245.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB017K02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018482944.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG5-like
Refseq	XP_018482945.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG5-like
Refseq	XP_018482946.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG5-like
Swissprot	Q9FJS2	0.0	HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBL	A0A0D2ZV28	0.0	A0A0D2ZV28_BRAOL; Uncharacterized protein
STRING	Bo01466s010.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4356	25	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G46880.1	0.0	homeobox-7

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Lung SC, et al. Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors. New Phytol., 2018. 218(1): p. 183-200 [PMID:29288621]