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_009109609.1

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

TCP

Protein Properties

Length: 308aa MW: 34410.5 Da PI: 7.1472

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009109609.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	97.8	2e-30	43	144	1	123
TCP 1 aagkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssgkaaksaa 95 a+g+kdrhsk+ T++g+RdRR+Rls+ +a++f+dLqd+LGfd++sk++eWL+++a +i +l+ +++ ++ XP_009109609.1 43 ATGGKDRHSKVLTSKGLRDRRIRLSVATAIQFYDLQDRLGFDQPSKAVEWLINAASDSISDLNPIDTNFEQTL---------------------- 115 5899************************************************************944444222...................... PP TCP 96 kskksqksaasalnlak.esrakararar 123 + +ks++s++s l+l++ esr kar+r XP_009109609.1 116 SLSKSSTSESSLLSLSRtESRGKARERTA 144 22333333333333333333333333311 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.5E-29	45	147	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.035	46	104	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 308 aa Download sequence Send to blast
MEDDDDIETQ QQTSRKLQRL SSDKTEMRDW SNPSSRIIRV SRATGGKDRH SKVLTSKGLR 60 DRRIRLSVAT AIQFYDLQDR LGFDQPSKAV EWLINAASDS ISDLNPIDTN FEQTLSLSKS 120 STSESSLLSL SRTESRGKAR ERTAKDKDLQ SSFTQLLTRG FDESNRSWTG GGSSDCFNPV 180 QLIPSSLNHR QEPSLNHSNS QNQYSFLPNY NVGISSSDSP GEAGCYSSRG TLQSNSLPLF 240 LNNNINQRSI SSSSSSSSPM DSQSISFFMS PPLHNHSHDQ LPEAFDGRLY LYYGEGNRSS 300 DDKGKERR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	4e-19	51	104	1	54	Putative transcription factor PCF6
5zkt_B	4e-19	51	104	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, stems, buds, flowers and siliques. {ECO:0000269\|PubMed:17307931}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). In association with ABAP1, exerts a negative role in cell proliferation in leaves, possibly by inhibiting mitotic DNA replication. Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18818695, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009109609.1

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	AK353156	1e-54	AK353156.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-21-I20.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009109610.1	0.0	PREDICTED: transcription factor TCP24-like
Refseq	XP_018508964.1	0.0	PREDICTED: transcription factor TCP24-like
Swissprot	Q9C758	1e-122	TCP24_ARATH; Transcription factor TCP24
TrEMBL	A0A397YD15	0.0	A0A397YD15_BRACM; Uncharacterized protein
TrEMBL	M4D2T6	0.0	M4D2T6_BRARP; Uncharacterized protein
STRING	Bra010789.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13840	17	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30210.2	1e-114	TCP family protein

Publications ? help Back to Top
Wang H,Mao Y,Yang J,He Y TCP24 modulates secondary cell wall thickening and anther endothecium development. Front Plant Sci, 2015. 6: p. 436 [PMID:26157444] Zhu P, et al. Arabidopsis small nucleolar RNA monitors the efficient pre-rRNA processing during ribosome biogenesis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(42): p. 11967-11972 [PMID:27708161]