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

GSBRNA2T00041026001

Common Name

GSBRNA2T00041026001

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: 597aa MW: 65469.4 Da PI: 7.4883

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00041026001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	50.7	3.5e-16	317	355	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCkkskClk+YCeCfaag++C e C+C dC+Nk GSBRNA2T00041026001 317 SCKRCNCKKSKCLKLYCECFAAGVYCIEPCSCIDCFNKP 355 689**********************************96 PP
2	TCR	52.3	1.1e-16	402	440	1	39
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN GSBRNA2T00041026001 402 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNA 440 589***********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	2.4E-19	316	357	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	37.543	317	442	IPR005172	CRC domain
Pfam	PF03638	5.6E-12	319	354	IPR005172	CRC domain
SMART	SM01114	4.2E-17	402	443	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	5.5E-12	404	440	IPR005172	CRC domain

Sequence ? help Back to Top
Protein Sequence Length: 597 aa Download sequence Send to blast
MATRFYLGLF KGFDGSDNSP VFNYINSLSP ITTVKSISNA QTFSSLSFTS PPPVFTTPHV 60 ASHKGSRFRS HSNSSDPSNK VVEEALLEKE PPQILNNECL TTTPRVTNDG ACEYGETDLQ 120 KMCDDNVKRK SDTPDWETLI SDSSDMLIYG SPNDSEAFRC FLQRSSDSKT RLCDGGSKPA 180 LVAPVSQSNE PESSDALSIL HRGVRRRCLD FEMPRNNNQT PRCVVPSIGL HLNAIAMSSK 240 DNNNVSKEYS FTGNVKVGLQ SSTTPVLPSD DIGRDNEIRE AAGVEEAPLS LALVEVNQSS 300 PKKKRQVSEQ AGEGESSCKR CNCKKSKCLK LYCECFAAGV YCIEPCSCID CFNKPIHEDT 360 VLATRKQIES RNPLAFAPKV IRNSDSTIEV GEDASKTPAS ARHKRGCNCK KSNCLKKYCE 420 CYQSGVGCSI NCRCEGCKNA FGRKDGSSFA GMDTEQDQEN ETSGKSGTTI PLPPSTPMPL 480 RQPLAQLPIS SNNMLPSQQS QQHLHGASLY NSQSFRKQDM GLMSHSRIET IAEERAEDIE 540 NFIHSPVTNI NALSPNSKRV SLPHMDSTET THWRRNGGRK LLLSSIPTFP SLTPHH*

Sequence ? help Back to Top

Protein Sequence Length: 597 aa Download sequence Send to blast

MATRFYLGLF KGFDGSDNSP VFNYINSLSP ITTVKSISNA QTFSSLSFTS PPPVFTTPHV  60
ASHKGSRFRS HSNSSDPSNK VVEEALLEKE PPQILNNECL TTTPRVTNDG ACEYGETDLQ  120
KMCDDNVKRK SDTPDWETLI SDSSDMLIYG SPNDSEAFRC FLQRSSDSKT RLCDGGSKPA  180
LVAPVSQSNE PESSDALSIL HRGVRRRCLD FEMPRNNNQT PRCVVPSIGL HLNAIAMSSK  240
DNNNVSKEYS FTGNVKVGLQ SSTTPVLPSD DIGRDNEIRE AAGVEEAPLS LALVEVNQSS  300
PKKKRQVSEQ AGEGESSCKR CNCKKSKCLK LYCECFAAGV YCIEPCSCID CFNKPIHEDT  360
VLATRKQIES RNPLAFAPKV IRNSDSTIEV GEDASKTPAS ARHKRGCNCK KSNCLKKYCE  420
CYQSGVGCSI NCRCEGCKNA FGRKDGSSFA GMDTEQDQEN ETSGKSGTTI PLPPSTPMPL  480
RQPLAQLPIS SNNMLPSQQS QQHLHGASLY NSQSFRKQDM GLMSHSRIET IAEERAEDIE  540
NFIHSPVTNI NALSPNSKRV SLPHMDSTET THWRRNGGRK LLLSSIPTFP SLTPHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	3e-17	319	439	12	120	Protein lin-54 homolog
5fd3_B	3e-17	319	439	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	GSBRNA2T00041026001

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-145	AF205142.1 Arabidopsis thaliana CXC domain containing TSO1-like protein 1 (SOL1) mRNA, complete cds.
GenBank	AY099653	1e-145	AY099653.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.
GenBank	AY128837	1e-145	AY128837.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013607445.1	0.0	PREDICTED: protein tesmin/TSO1-like CXC 3 isoform X2
Refseq	XP_022559640.1	0.0	protein tesmin/TSO1-like CXC 3 isoform X2
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A078JDA3	0.0	A0A078JDA3_BRANA; BnaCnng43510D protein
STRING	Bo1g104900.1	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]