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

RrC12859_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

CPP

Protein Properties

Length: 570aa MW: 62139 Da PI: 8.2758

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12859_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	50	5.7e-16	288	326	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCk+skClk+YCeCfaag++C C+C dC+Nk RrC12859_p1 288 SCKRCNCKRSKCLKLYCECFAAGVYCIGPCSCVDCFNKP 326 689**********************************96 PP
2	TCR	51.6	1.8e-16	374	413	1	40
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN RrC12859_p1 374 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNAF 413 589***********************************75 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	4.3E-18	287	328	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	36.562	288	414	IPR005172	CRC domain
Pfam	PF03638	9.7E-12	290	325	IPR005172	CRC domain
SMART	SM01114	9.9E-17	374	415	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	5.2E-12	376	412	IPR005172	CRC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 570 aa Download sequence Send to blast
MDTPKKTVTQ SENPVSKLKL ENSPVYNYIN SLTPIKPVRS LTFPQTIGSL SYSSPPSVFT 60 SPHASSHKGS RFNSDDTNSS KDVPASVGEE ALHETEPPQI QQNECTTITT TPPRVINDNE 120 TDLLKMCDGN VKQKSETPDW NAIISGYDDL LICDPNNESE ASRCFLGRST ESKARLLSVT 180 KPSDDALHRG VTKRCLDFEM PGNNKHMSVE SSPRCVVANI GLHLSTIAVS SKDNNVGNDY 240 SLSGHSKVDL QGSISAVHNS QETVKDNGQG LKEGAMRKVE QAGEVESSCK RCNCKRSKCL 300 KLYCECFAAG VYCIGPCSCV DCFNKPIHED TVMATRKQIE SRNPLAFAPK VIGNSDSVVE 360 IGDGNASKTP ASARHKRGCN CKKSNCLKKY CECYQSGVGC SINCRCEGCK NAFGKKYVSA 420 GSSFTGMHVK QDKENETSER GRTEKQPSTP MPLRQPLAHL PISSNNILLP HQHLHGASGS 480 SLLKSQSFKR QDMSLLSHSN IETITEKRAD DIENLIQSPI TNMINNAVTP NSKRVSLPHV 540 GSSELSPCRR NGGRKLLLSV PTFPSLSPHH

Sequence ? help Back to Top

Protein Sequence Length: 570 aa Download sequence Send to blast

MDTPKKTVTQ SENPVSKLKL ENSPVYNYIN SLTPIKPVRS LTFPQTIGSL SYSSPPSVFT  60
SPHASSHKGS RFNSDDTNSS KDVPASVGEE ALHETEPPQI QQNECTTITT TPPRVINDNE  120
TDLLKMCDGN VKQKSETPDW NAIISGYDDL LICDPNNESE ASRCFLGRST ESKARLLSVT  180
KPSDDALHRG VTKRCLDFEM PGNNKHMSVE SSPRCVVANI GLHLSTIAVS SKDNNVGNDY  240
SLSGHSKVDL QGSISAVHNS QETVKDNGQG LKEGAMRKVE QAGEVESSCK RCNCKRSKCL  300
KLYCECFAAG VYCIGPCSCV DCFNKPIHED TVMATRKQIE SRNPLAFAPK VIGNSDSVVE  360
IGDGNASKTP ASARHKRGCN CKKSNCLKKY CECYQSGVGC SINCRCEGCK NAFGKKYVSA  420
GSSFTGMHVK QDKENETSER GRTEKQPSTP MPLRQPLAHL PISSNNILLP HQHLHGASGS  480
SLLKSQSFKR QDMSLLSHSN IETITEKRAD DIENLIQSPI TNMINNAVTP NSKRVSLPHV  540
GSSELSPCRR NGGRKLLLSV PTFPSLSPHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	1e-17	290	411	12	120	Protein lin-54 homolog
5fd3_B	1e-17	290	411	12	120	Protein lin-54 homolog
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a role in development of both male and female reproductive tissues. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00044	PBM	Transfer from AT3G22760	Download

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_013584927.1	0.0	PREDICTED: protein tesmin/TSO1-like CXC 3
Refseq	XP_013695714.1	0.0	protein tesmin/TSO1-like CXC 3
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A0D3CH37	0.0	A0A0D3CH37_BRAOL; Uncharacterized protein
STRING	Bo5g094510.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1467	28	91

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G22760.1	0.0	Tesmin/TSO1-like CXC domain-containing protein

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]