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

GSBRNA2T00067571001

Common Name

GSBRNA2T00067571001

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: 605aa MW: 66347.3 Da PI: 7.2105

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00067571001	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	325	363	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCkkskClk+YCeCfaag++C e C+C dC+Nk GSBRNA2T00067571001 325 SCKRCNCKKSKCLKLYCECFAAGVYCIEPCSCIDCFNKP 363 689**********************************96 PP
2	TCR	52.3	1.1e-16	410	448	1	39
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN GSBRNA2T00067571001 410 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNA 448 589***********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	2.4E-19	324	365	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	37.543	325	450	IPR005172	CRC domain
Pfam	PF03638	5.6E-12	327	362	IPR005172	CRC domain
SMART	SM01114	4.2E-17	410	451	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	5.6E-12	412	448	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: 605 aa Download sequence Send to blast
MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS ISNAQTFSSL SFTSPPPVFT 60 TPHVASHKGS RFRSHSNSSD PSNKVVEEAL PEKEPPQILN NDCLTTTTPR VTNDGSCEDG 120 ETDLQKMCDD NVKRKSDTPD WETLISDSSD MLIYGSPNDS EAFRCFLQRS SDSKTRLCSG 180 SKPALPPVSQ SNEPESSDAL SILHRGVRRR CLDFEMPRNN NQTPRCVVPS IGLHLNAIAM 240 SSKDNNNVSK EYSFTGNVKV GLQSSTKTPV LPSDDIVREN ETREEAAGEE GLEEAPVSLA 300 LVEVSQSSPK KKRQVSEQAG EGESSCKRCN CKKSKCLKLY CECFAAGVYC IEPCSCIDCF 360 NKPIHEDTVL ATRKQIESRN PLAFAPKVIR NSDSTIEVGE DASKTPASAR HKRGCNCKKS 420 NCLKKYCECY QSGVGCSINC RCEGCKNAFG RKDGSSFAGM DTEQDQENET SGKSGTTIPL 480 PPSTPMPLRQ PLAQLPISSN NMLPSQQSQQ HLHGASLYNS QSFRKQDMGL MSHSRIETIA 540 EERAEDIENF IHSPVTNINA LSPNSKRVSL PHMDSTETTP WRRNGGRKLL LSSIPTFPSL 600 TPHH*

Sequence ? help Back to Top

Protein Sequence Length: 605 aa Download sequence Send to blast

MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS ISNAQTFSSL SFTSPPPVFT  60
TPHVASHKGS RFRSHSNSSD PSNKVVEEAL PEKEPPQILN NDCLTTTTPR VTNDGSCEDG  120
ETDLQKMCDD NVKRKSDTPD WETLISDSSD MLIYGSPNDS EAFRCFLQRS SDSKTRLCSG  180
SKPALPPVSQ SNEPESSDAL SILHRGVRRR CLDFEMPRNN NQTPRCVVPS IGLHLNAIAM  240
SSKDNNNVSK EYSFTGNVKV GLQSSTKTPV LPSDDIVREN ETREEAAGEE GLEEAPVSLA  300
LVEVSQSSPK KKRQVSEQAG EGESSCKRCN CKKSKCLKLY CECFAAGVYC IEPCSCIDCF  360
NKPIHEDTVL ATRKQIESRN PLAFAPKVIR NSDSTIEVGE DASKTPASAR HKRGCNCKKS  420
NCLKKYCECY QSGVGCSINC RCEGCKNAFG RKDGSSFAGM DTEQDQENET SGKSGTTIPL  480
PPSTPMPLRQ PLAQLPISSN NMLPSQQSQQ HLHGASLYNS QSFRKQDMGL MSHSRIETIA  540
EERAEDIENF IHSPVTNINA LSPNSKRVSL PHMDSTETTP WRRNGGRKLL LSSIPTFPSL  600
TPHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	3e-17	329	447	14	120	Protein lin-54 homolog
5fd3_B	3e-17	329	447	14	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}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00067571001

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-143	AF205142.1 Arabidopsis thaliana CXC domain containing TSO1-like protein 1 (SOL1) mRNA, complete cds.
GenBank	AY099653	1e-143	AY099653.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.
GenBank	AY128837	1e-143	AY128837.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013751683.1	0.0	protein tesmin/TSO1-like CXC 3
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A078JR38	0.0	A0A078JR38_BRANA; BnaCnng56700D protein
STRING	Bra023810.1-P	0.0	(Brassica rapa)

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]