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

XP_009117270.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

TALE

Protein Properties

Length: 608aa MW: 67637.7 Da PI: 6.7981

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009117270.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	29.9	9.6e-10	420	457	19	54
HHH..SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS Homeobox 19 Fek..nrypsaeereeLAkklgLterqVkvWFqNrRak 54 Fe n+yps +++ LA+++gL+ +qV++WF N R + XP_009117270.1 420 FEHflNPYPSDADKHLLARQTGLSRNQVSNWFINARVR 457 665569******************************88 PP
2	BELL	121.9	2.6e-39	278	349	1	72
BELL 1 erqelqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 +r e+q++k+kLls+leeVd+rY++y+eq+q+v++sF++v+g+g+a pYt+lA+ka+SrhFrcLkda+ q+ XP_009117270.1 278 DRIEHQRRKVKLLSMLEEVDRRYNHYCEQMQMVVNSFDQVMGYGAAIPYTTLAQKAMSRHFRCLKDAVLVQL 349 589*****************************************************************9886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00574	4.1E-81	211	347	IPR006563	POX domain
Pfam	PF07526	3.4E-51	217	345	IPR006563	POX domain
PROSITE profile	PS50071	12.86	398	461	IPR001356	Homeobox domain
CDD	cd00086	8.53E-13	401	462	No hit	No description
SMART	SM00389	1.1E-9	401	465	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.2E-17	402	468	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.6E-28	404	467	IPR009057	Homeodomain-like
Pfam	PF05920	2.7E-18	418	457	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: 608 aa Download sequence Send to blast
MSQDYHHPQG IFSFSNGFHR PSSSHQEEVE ESAVSGAPIP VYETAGMLSE MFSYPGGGSG 60 EILDHSTKQL LEQQNRHNNN NNSTLHMLLP NHHQGYGYAN EQQQHHFTWP SCSDHQSQGD 120 MIGTVHVEGG KGLSLSLSSS LEAAAAAKAE EYRSIYCAAV DGTSSSNTSA HHHHQFNQFK 180 TLLLDNSTSH HQAVGHFGSS SSSPMGASSS IGGIYTLRNS KYTKPAQELL EEFCSVGRGH 240 FKKNKLSRNN SNPNTSGGGG SSSSPGVAND NPPLSPADRI EHQRRKVKLL SMLEEVDRRY 300 NHYCEQMQMV VNSFDQVMGY GAAIPYTTLA QKAMSRHFRC LKDAVLVQLK RSCELLGEKE 360 TSGAASSGLT KGETPRLRLL EQSLRQQRAF HHMGMMEQEA WRPQRGLPER SVNILRAWLF 420 EHFLNPYPSD ADKHLLARQT GLSRNQVSNW FINARVRLWK PMVEEMYQQE AKEREEKELE 480 ENQKEDYHQT NNSSNNSDTK PNESNFTLVQ TITAQTPTTT MMTPTPHEND SSFLPSSVVT 540 AAPHSVSDAF TPATCQQDVS DHFQVNDGVI RFGTKQAGDV SLTLGIRHTG NMPDNKNPSF 600 SVRDFGDF

Sequence ? help Back to Top

Protein Sequence Length: 608 aa Download sequence Send to blast

MSQDYHHPQG IFSFSNGFHR PSSSHQEEVE ESAVSGAPIP VYETAGMLSE MFSYPGGGSG  60
EILDHSTKQL LEQQNRHNNN NNSTLHMLLP NHHQGYGYAN EQQQHHFTWP SCSDHQSQGD  120
MIGTVHVEGG KGLSLSLSSS LEAAAAAKAE EYRSIYCAAV DGTSSSNTSA HHHHQFNQFK  180
TLLLDNSTSH HQAVGHFGSS SSSPMGASSS IGGIYTLRNS KYTKPAQELL EEFCSVGRGH  240
FKKNKLSRNN SNPNTSGGGG SSSSPGVAND NPPLSPADRI EHQRRKVKLL SMLEEVDRRY  300
NHYCEQMQMV VNSFDQVMGY GAAIPYTTLA QKAMSRHFRC LKDAVLVQLK RSCELLGEKE  360
TSGAASSGLT KGETPRLRLL EQSLRQQRAF HHMGMMEQEA WRPQRGLPER SVNILRAWLF  420
EHFLNPYPSD ADKHLLARQT GLSRNQVSNW FINARVRLWK PMVEEMYQQE AKEREEKELE  480
ENQKEDYHQT NNSSNNSDTK PNESNFTLVQ TITAQTPTTT MMTPTPHEND SSFLPSSVVT  540
AAPHSVSDAF TPATCQQDVS DHFQVNDGVI RFGTKQAGDV SLTLGIRHTG NMPDNKNPSF  600
SVRDFGDF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4xrs_A	1e-15	407	464	1	58	Homeobox protein Meis1
4xrs_B	1e-15	407	464	1	58	Homeobox protein Meis1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.3699	0.0	leaf

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in lateral organs. {ECO:0000269\|PubMed:17873098}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that establishes leaf shape by repressing growth in specific subdomains of the leaf. Negatively regulates knox homeobox gene KNAT1/BP expression. {ECO:0000269\|PubMed:17873098}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009117270.1

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	AF353092	0.0	AF353092.1 Arabidopsis thaliana BEL1-like homeobox 4 (BLH4) mRNA, complete cds.
GenBank	AY058179	0.0	AY058179.1 Arabidopsis thaliana At2g23760/F27L4.6 mRNA, complete cds.
GenBank	AY142019	0.0	AY142019.1 Arabidopsis thaliana At2g23760/F27L4.6 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018510616.1	0.0	PREDICTED: BEL1-like homeodomain protein 4
Swissprot	Q94KL5	0.0	BLH4_ARATH; BEL1-like homeodomain protein 4
TrEMBL	M4FDP1	0.0	M4FDP1_BRARP; Uncharacterized protein
STRING	Bra039212.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2166	24	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G23760.3	0.0	BEL1-like homeodomain 4

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]