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

GSBRNA2T00014689001

Common Name

GSBRNA2T00014689001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

CPP

Protein Properties

Length: 550aa MW: 60174 Da PI: 8.0324

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00014689001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	50.1	5.4e-16	278	316	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCk+skClk+YCeCfaag++C C+C dC+Nk GSBRNA2T00014689001 278 SCKRCNCKRSKCLKLYCECFAAGVYCIGPCSCVDCFNKP 316 689**********************************96 PP
2	TCR	52.5	1e-16	364	402	1	39
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN GSBRNA2T00014689001 364 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNA 402 589***********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	4.3E-18	277	318	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	36.385	278	404	IPR005172	CRC domain
Pfam	PF03638	9.3E-12	280	315	IPR005172	CRC domain
SMART	SM01114	4.2E-17	364	405	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	4.9E-12	366	402	IPR005172	CRC domain

Sequence ? help Back to Top
Protein Sequence Length: 550 aa Download sequence Send to blast
MDTPPKNVTQ MENPISKLKL ENSPVFNYIN SLSPIKPVRS LPIAQTFGSL SYSSPPSVFT 60 SPHVSSHKGS RFKSDHNHVP TSVGEDEALR ETEPPQILQN ECTTDLLKMC DGNVKQKSET 120 PDWDAMISDS SDILILDSVN DSEASRCFLE RPSDSKTRSL GVAKSTLEPL MNIDDALHRG 180 VRRRCLGFEQ TPVASSSRCA VPSIGLHFNT IAMSSNDNNV GNEYSLSGNI KVGLQSSITS 240 VLNSQDNVGV SETGEDAGQG VEEGPKRKFG QAGEGESSCK RCNCKRSKCL KLYCECFAAG 300 VYCIGPCSCV DCFNKPIHED TVMATRKQIE SRNPLAFAPK VIGNSDSIME VGDDAKSKTP 360 ASARHKRGCN CKKSNCLKKY CECYQSGVGC SINCRCEGCK NAFGRKDGSS FTSMDKENET 420 SSRGRTEKQP STPMPLRQPL AQLPISSNNM LLTHQHLHGA SGSSLHMSQS FRRQDMSLMS 480 HSKIEIITEE RRADNIENLI ESPMTNMINA VSPNSKRVSL PMELSPWRRN GGRKLLLSIP 540 TFPSLTPHH*

Sequence ? help Back to Top

Protein Sequence Length: 550 aa Download sequence Send to blast

MDTPPKNVTQ MENPISKLKL ENSPVFNYIN SLSPIKPVRS LPIAQTFGSL SYSSPPSVFT  60
SPHVSSHKGS RFKSDHNHVP TSVGEDEALR ETEPPQILQN ECTTDLLKMC DGNVKQKSET  120
PDWDAMISDS SDILILDSVN DSEASRCFLE RPSDSKTRSL GVAKSTLEPL MNIDDALHRG  180
VRRRCLGFEQ TPVASSSRCA VPSIGLHFNT IAMSSNDNNV GNEYSLSGNI KVGLQSSITS  240
VLNSQDNVGV SETGEDAGQG VEEGPKRKFG QAGEGESSCK RCNCKRSKCL KLYCECFAAG  300
VYCIGPCSCV DCFNKPIHED TVMATRKQIE SRNPLAFAPK VIGNSDSIME VGDDAKSKTP  360
ASARHKRGCN CKKSNCLKKY CECYQSGVGC SINCRCEGCK NAFGRKDGSS FTSMDKENET  420
SSRGRTEKQP STPMPLRQPL AQLPISSNNM LLTHQHLHGA SGSSLHMSQS FRRQDMSLMS  480
HSKIEIITEE RRADNIENLI ESPMTNMINA VSPNSKRVSL PMELSPWRRN GGRKLLLSIP  540
TFPSLTPHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	1e-16	280	401	12	120	Protein lin-54 homolog
5fd3_B	1e-16	280	401	12	120	Protein lin-54 homolog
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous but expressed mostly in flowers and at significant levels in leaves. Detected with highest levels in developing ovules and microspores, and in petals. {ECO:0000269\|PubMed:10769245, ECO:0000269\|PubMed:18057042}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00014689001

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	AF205142	1e-141	AF205142.1 Arabidopsis thaliana CXC domain containing TSO1-like protein 1 (SOL1) mRNA, complete cds.
GenBank	AY099653	1e-141	AY099653.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.
GenBank	AY128837	1e-141	AY128837.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.

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	A0A078IXG0	0.0	A0A078IXG0_BRANA; BnaCnng27640D 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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]