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

Rsa1.0_00361.1_g00006.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

TCP

Protein Properties

Length: 319aa MW: 35790.8 Da PI: 6.9641

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00361.1_g00006.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	100.6	2.7e-31	48	154	2	128
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsss 87 g+kdrhsk+ T++g+RdRR+Rls+ +a++f+dLqd+LGfd++sk++eWL+++a +i l +++ Rsa1.0_00361.1_g00006.1 48 SGGKDRHSKVLTSKGLRDRRIRLSVATAIQFYDLQDRLGFDQPSKAVEWLINAASDSISGLDPIDTNFD----------------- 116 689**********************************************************99933333................. PP TCP 88 gkaaksaakskksqksaasalnlak.esrakararare.rtre 128 ++ + +ks++s++s l+l++ esr k+r+r + r+++ Rsa1.0_00361.1_g00006.1 117 -----QTLSLSKSSTSESSLLSLSRtESRGKERERTSKeRDNK 154 .....12233344444444445544455555555432223333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	6.0E-28	49	154	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	30.323	50	108	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 319 aa Download sequence Send to blast
MEDDDDIETQ QHQQQQTSRK LQRLSSDKTE MRDWSDPSSR IIRVSRASGG KDRHSKVLTS 60 KGLRDRRIRL SVATAIQFYD LQDRLGFDQP SKAVEWLINA ASDSISGLDP IDTNFDQTLS 120 LSKSSTSESS LLSLSRTESR GKERERTSKE RDNKDLQSSF TQLLTSGFDE PNRNWTGGGS 180 SDCFNPVQLM PNSNSLNHRQ EPSLNHHHSQ NQYSFVPNYN FGISSSDSPG ATGCYSSRGT 240 LQSNSQSLFL NNNNNNINQR SISSSSSSSS PMDSQSISFF MAPPLNHHSP QLPEAFDGRL 300 YLYYGEGNRS SDDKGKERR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	3e-19	55	108	1	54	Putative transcription factor PCF6
5zkt_B	3e-19	55	108	1	54	Putative transcription factor PCF6
Search in ModeBase

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	Rsa1.0_00361.1_g00006.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018451672.1	0.0	PREDICTED: transcription factor TCP24-like
Swissprot	Q9C758	1e-134	TCP24_ARATH; Transcription factor TCP24
TrEMBL	A0A3P6AVR6	1e-177	A0A3P6AVR6_BRAOL; Uncharacterized protein
STRING	Bo3g147760.1	1e-176	(Brassica oleracea)

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-109	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]