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_009136422.1

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: 366aa MW: 40698.2 Da PI: 6.6787

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009136422.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	96.1	7e-30	67	188	3	89
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt................................ 65 g+kdrhsk++T +g+RdRR+Rls+++a++++dLqd+LG+ ++sk ++WLl++ak +++l+ + XP_009136422.1 67 GGKDRHSKVCTVRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVVDWLLEAAKDDVDKLPPLqfphgfnqmypnlffgnsgigesssstsafpg 161 78*************************************************************66665555555555554444433322222222 PP TCP 66 ssssaseceaesssssasnsssg........................k 89 + + + XP_009136422.1 162 T---------------------NlgflesydlggsssrtrsriqetpR 188 0.....................13333333333222222222222220 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.2E-27	68	197	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	29.711	68	126	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic

Sequence ? help Back to Top
Protein Sequence Length: 366 aa Download sequence Send to blast
MRSRECDEEE IQAKQEGDHS ENNNHQVNLN NMLQQQQQNQ PSSLSSSRQW TSAFRNPRIV 60 RVSRTFGGKD RHSKVCTVRG LRDRRIRLSV PTAIQLYDLQ DRLGLSQPSK VVDWLLEAAK 120 DDVDKLPPLQ FPHGFNQMYP NLFFGNSGIG ESSSSTSAFP GTNLGFLESY DLGGSSSRTR 180 SRIQETPRES FDLDKGKWIK NDENANHHQD HGFDASHQHF SLTNPYNNSN ASSYYNLGHL 240 QHSLDQSGNN VTVAISNVPS NNNNNNLNLP PPSSAGDGSQ LLFGPPPPAM SSLFPTYPSF 300 LGASHHQHHH VVDGAGNLQL FSSNANTASQ QQMMTGNSSL IRPFHHLMSS NHDTDRHSSD 360 DNDSDS

Sequence ? help Back to Top

Protein Sequence Length: 366 aa Download sequence Send to blast

MRSRECDEEE IQAKQEGDHS ENNNHQVNLN NMLQQQQQNQ PSSLSSSRQW TSAFRNPRIV  60
RVSRTFGGKD RHSKVCTVRG LRDRRIRLSV PTAIQLYDLQ DRLGLSQPSK VVDWLLEAAK  120
DDVDKLPPLQ FPHGFNQMYP NLFFGNSGIG ESSSSTSAFP GTNLGFLESY DLGGSSSRTR  180
SRIQETPRES FDLDKGKWIK NDENANHHQD HGFDASHQHF SLTNPYNNSN ASSYYNLGHL  240
QHSLDQSGNN VTVAISNVPS NNNNNNLNLP PPSSAGDGSQ LLFGPPPPAM SSLFPTYPSF  300
LGASHHQHHH VVDGAGNLQL FSSNANTASQ QQMMTGNSSL IRPFHHLMSS NHDTDRHSSD  360
DNDSDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	6e-19	73	127	1	55	Putative transcription factor PCF6
5zkt_B	6e-19	73	127	1	55	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.28804	0.0	leaf

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, buds, flowers and immature 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). Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00065	PBM	Transfer from AT5G60970	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009136422.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009136422.1	0.0	PREDICTED: transcription factor TCP5
Swissprot	Q9FME3	0.0	TCP5_ARATH; Transcription factor TCP5
TrEMBL	A0A398A3F5	0.0	A0A398A3F5_BRACM; Uncharacterized protein
TrEMBL	M4D930	0.0	M4D930_BRARP; Uncharacterized protein
STRING	Bra012990.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3576	27	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60970.1	1e-151	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 5

Publications ? help Back to Top
Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549]