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_009147378.1

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: 309aa MW: 34451.3 Da PI: 7.7617

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009147378.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	106.5	4.3e-33	74	190	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg...... 88 g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl++ak +i+el+ ++ s+++++ ++++ + s++ + XP_009147378.1 74 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGLDQPSKAVDWLLNAAKDEIDELPPLPVSPETFSlfNHHQAFLNLSQPPGQdptqlg 168 689*************************************************************7777766656555555555544333455555 PP TCP 89 .....................k 89 + XP_009147378.1 169 fkingcveesntttsreetnnN 190 5554443322221111112220 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.4E-29	76	182	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.686	76	134	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 309 aa Download sequence Send to blast
MNTGPWRDAN DDVSGGTRTR RNGEVEEDSE EAVVVAVATS GKPVIKKPPT SISSSSSSWM 60 KSKDRRIVRV SRAFGGKDRH SKVCTLRGLR DRRVRLSVPT AIQLYDLQER LGLDQPSKAV 120 DWLLNAAKDE IDELPPLPVS PETFSLFNHH QAFLNLSQPP GQDPTQLGFK INGCVEESNT 180 TTSREETNNN HIGSYGTYQY MEQHQQQHTR FQADYPHHQH QLHSLVPIQS QFLVCPVTTS 240 STTTTIQSLF PSSTSAGSRT METTDPRQMV SHFQMPLMGS SSSSQNISTL YSLLHGNSNP 300 MPSVQFDRK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-18	81	135	1	55	Putative transcription factor PCF6
5zkt_B	1e-18	81	135	1	55	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, buds, flowers and immature siliques, and, to a lower extent, in roots. {ECO:0000269\|PubMed:11161017, 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). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:11161017, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009147378.1

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	AC232459	0.0	AC232459.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB020F06, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009147377.1	0.0	PREDICTED: transcription factor TCP13 isoform X1
Swissprot	Q9S7W5	1e-152	TCP13_ARATH; Transcription factor TCP13
TrEMBL	A0A291I335	0.0	A0A291I335_BRARR; TCP13a
TrEMBL	M4FDI7	0.0	M4FDI7_BRARP; Uncharacterized protein
STRING	Bra039158.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G02150.2	1e-125	plastid transcription factor 1

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Yamburenko MV,Zubo YO,Börner T Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5. Plant J., 2015. 82(6): p. 1030-41 [PMID:25976841] 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]