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

RrC3421_p2

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

TALE

Protein Properties

Length: 684aa MW: 75778.4 Da PI: 8.7684

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3421_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	29.6	1.2e-09	412	449	19	54
HHH..SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS Homeobox 19 Fek..nrypsaeereeLAkklgLterqVkvWFqNrRak 54 Fe+ ++yp+ +++ LAk++gLt +qV++WF N R + RrC3421_p2 412 FENflHPYPKDSDKHMLAKQTGLTRSQVSNWFINARVR 449 776669******************************88 PP
2	BELL	90.2	2e-29	284	346	10	72
BELL 10 akLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 +k l l V++rY+qy++q+q+vi sFe++ag+gsak+YtslAlk+iSr+Fr+Lk+aia+qi RrC3421_p2 284 SKKLPLKFSVEQRYRQYHQQMQMVILSFEQAAGIGSAKSYTSLALKTISRQFRSLKEAIAGQI 346 566788889*****************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00574	8.5E-63	172	344	IPR006563	POX domain
Pfam	PF07526	6.9E-42	178	343	IPR006563	POX domain
PROSITE profile	PS50071	12.293	390	453	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.0E-28	392	466	IPR009057	Homeodomain-like
CDD	cd00086	1.58E-11	393	453	No hit	No description
SMART	SM00389	2.1E-9	393	457	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.41E-16	394	460	IPR009057	Homeodomain-like
Pfam	PF05920	9.3E-18	410	449	IPR008422	Homeobox KN domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 684 aa Download sequence Send to blast
MAAYFHGNPP EISAGSDGGL QTLILMNPTT YVQYTQQDND SNNNNNTNNN NNSSFVFLDP 60 HAPPQNTSQQ FVRVPLSGHK AASITSADSI SVLQGYPQRV QYSHYSSHQV DPSHQQAACE 120 SPRAQQGLFL TLSSQQQHQQ QHQNQHQTLH HVGFGSGPGE DIRVGSVGSG VTNGIANLVS 180 SKYLKAAQEL LDEVVKADSN DINTKSQLFS SKKGTSGTDD KAVRESSTGA GEGSGGGGEA 240 SEKLTVEIGT AERQEIQMKK AKLSSMLHEV TTIRYLISHM KWTSKKLPLK FSVEQRYRQY 300 HQQMQMVILS FEQAAGIGSA KSYTSLALKT ISRQFRSLKE AIAGQIKTAN KSLGEKDSVS 360 GVGRLKFVDH HLRQQRAIQQ LGMIQHHPSN NAWRPQRGLP ERAVSVLRSW LFENFLHPYP 420 KDSDKHMLAK QTGLTRSQVS NWFINARVRL WKPMVEEMYM EEMKEQGKNI MEKESNLDNN 480 NEDSASKSTS NQEKSPMKGG GGADNYHPKP NHSGDLEGVT GMQGSPKRLR TNEETMMQPS 540 NVDFTSNEKL AMKILEERQG IRSDGGYPFM GSFGQYQMDE MSRFDVAVSD QELLAQRYSG 600 NNNGMSLTLG LPHCDSLSST HHQGFMQTHH AIPRERRVKI GETEEYGAAT ISAATVHSSA 660 AAYSGMNMQN QKRYVAQLLP DFVA

Sequence ? help Back to Top

Protein Sequence Length: 684 aa Download sequence Send to blast

MAAYFHGNPP EISAGSDGGL QTLILMNPTT YVQYTQQDND SNNNNNTNNN NNSSFVFLDP  60
HAPPQNTSQQ FVRVPLSGHK AASITSADSI SVLQGYPQRV QYSHYSSHQV DPSHQQAACE  120
SPRAQQGLFL TLSSQQQHQQ QHQNQHQTLH HVGFGSGPGE DIRVGSVGSG VTNGIANLVS  180
SKYLKAAQEL LDEVVKADSN DINTKSQLFS SKKGTSGTDD KAVRESSTGA GEGSGGGGEA  240
SEKLTVEIGT AERQEIQMKK AKLSSMLHEV TTIRYLISHM KWTSKKLPLK FSVEQRYRQY  300
HQQMQMVILS FEQAAGIGSA KSYTSLALKT ISRQFRSLKE AIAGQIKTAN KSLGEKDSVS  360
GVGRLKFVDH HLRQQRAIQQ LGMIQHHPSN NAWRPQRGLP ERAVSVLRSW LFENFLHPYP  420
KDSDKHMLAK QTGLTRSQVS NWFINARVRL WKPMVEEMYM EEMKEQGKNI MEKESNLDNN  480
NEDSASKSTS NQEKSPMKGG GGADNYHPKP NHSGDLEGVT GMQGSPKRLR TNEETMMQPS  540
NVDFTSNEKL AMKILEERQG IRSDGGYPFM GSFGQYQMDE MSRFDVAVSD QELLAQRYSG  600
NNNGMSLTLG LPHCDSLSST HHQGFMQTHH AIPRERRVKI GETEEYGAAT ISAATVHSSA  660
AAYSGMNMQN QKRYVAQLLP DFVA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3k2a_A	4e-15	399	457	5	63	Homeobox protein Meis2
3k2a_B	4e-15	399	457	5	63	Homeobox protein Meis2
Search in ModeBase

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	AC189380	0.0	AC189380.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB050K06, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018440077.1	0.0	PREDICTED: BEL1-like homeodomain protein 1
Refseq	XP_018440078.1	0.0	PREDICTED: BEL1-like homeodomain protein 1
Swissprot	Q9SJ56	0.0	BLH1_ARATH; BEL1-like homeodomain protein 1
TrEMBL	A0A397Z7X4	0.0	A0A397Z7X4_BRACM; Uncharacterized protein
STRING	Bo4g036190.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5008	26	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G35940.3	0.0	BEL1-like homeodomain 1

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]