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_00181.1_g00005.1

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

CPP

Protein Properties

Length: 587aa MW: 64397.9 Da PI: 6.4988

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00181.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	51.2	2.5e-16	300	338	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCkkskClk+YCeCfaag++C e C+C dC+Nk Rsa1.0_00181.1_g00005.1 300 SCKRCNCKKSKCLKLYCECFAAGVYCIEPCSCVDCFNKP 338 689**********************************96 PP
2	TCR	52.4	1.1e-16	385	423	1	39
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN Rsa1.0_00181.1_g00005.1 385 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNA 423 589***********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	2.4E-19	299	340	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	37.749	300	425	IPR005172	CRC domain
Pfam	PF03638	6.3E-12	302	337	IPR005172	CRC domain
SMART	SM01114	4.2E-17	385	426	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	5.4E-12	387	423	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: 587 aa Download sequence Send to blast
MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS TSTAQTFSSL TFTSPPPVFT 60 TPHVVASHKE SRFRSHSNSS DPSKVGPEAS TLEEEEEEEA LLEKEPSQNL KNESVTNDGA 120 CEDVETDLQR MCDDNVKRKS DTPDWETLIS NSSDMLIYGS PNDSEAFRCF LQRSSDSKTR 180 LCSGGSKPAL DPSVSKSNEP ESSDALSILH RGVRRRCLDF EMPRCVVPSI GLHLNAIAMS 240 CKDNNVSKQH SYTGNVKVGL QSSTTPALPS NDIVRESEAR EAVEEAPMRK SEQAGEGESS 300 CKRCNCKKSK CLKLYCECFA AGVYCIEPCS CVDCFNKPIH EDTVLATRKQ IESRNPLAFA 360 PKVIRNSDSI TEVGEDASKT PASARHKRGC NCKKSNCLKK YCECYQSGVG CSINCRCEGC 420 KNAFGRKDGS SFAGMDTEQD QENETSGKSG TAIPLPPSTP MSLRQPLSQL PNSSNNMLLS 480 QQSQQHLHGA SGSSLYNNSQ SSFRKQDMSL LSHSRIDTIA EERAEDIEDI ENLIQSPVTN 540 INAVSPNSKR VSLPHMESTE TTPWRRNGGR KLLLSSIPTF PSLTPHH

Sequence ? help Back to Top

Protein Sequence Length: 587 aa Download sequence Send to blast

MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS TSTAQTFSSL TFTSPPPVFT  60
TPHVVASHKE SRFRSHSNSS DPSKVGPEAS TLEEEEEEEA LLEKEPSQNL KNESVTNDGA  120
CEDVETDLQR MCDDNVKRKS DTPDWETLIS NSSDMLIYGS PNDSEAFRCF LQRSSDSKTR  180
LCSGGSKPAL DPSVSKSNEP ESSDALSILH RGVRRRCLDF EMPRCVVPSI GLHLNAIAMS  240
CKDNNVSKQH SYTGNVKVGL QSSTTPALPS NDIVRESEAR EAVEEAPMRK SEQAGEGESS  300
CKRCNCKKSK CLKLYCECFA AGVYCIEPCS CVDCFNKPIH EDTVLATRKQ IESRNPLAFA  360
PKVIRNSDSI TEVGEDASKT PASARHKRGC NCKKSNCLKK YCECYQSGVG CSINCRCEGC  420
KNAFGRKDGS SFAGMDTEQD QENETSGKSG TAIPLPPSTP MSLRQPLSQL PNSSNNMLLS  480
QQSQQHLHGA SGSSLYNNSQ SSFRKQDMSL LSHSRIDTIA EERAEDIEDI ENLIQSPVTN  540
INAVSPNSKR VSLPHMESTE TTPWRRNGGR KLLLSSIPTF PSLTPHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	2e-17	302	422	12	120	Protein lin-54 homolog
5fd3_B	2e-17	302	422	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00181.1_g00005.1

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-159	AF205142.1 Arabidopsis thaliana CXC domain containing TSO1-like protein 1 (SOL1) mRNA, complete cds.
GenBank	AY099653	1e-159	AY099653.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.
GenBank	AY128837	1e-159	AY128837.1 Arabidopsis thaliana unknown protein (At3g22760) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018433667.1	0.0	PREDICTED: protein tesmin/TSO1-like CXC 3
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A0D3ABH9	0.0	A0A0D3ABH9_BRAOL; Uncharacterized 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]