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

XP_009108686.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 607aa MW: 66702.8 Da PI: 7.4536

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009108686.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	50.7	3.6e-16	328	366	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+CnCkkskClk+YCeCfaag++C e C+C dC+Nk XP_009108686.1 328 SCKRCNCKKSKCLKLYCECFAAGVYCIEPCSCIDCFNKP 366 689**********************************96 PP
2	TCR	52.3	1.1e-16	413	451	1	39
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 ++k+gCnCkks+ClkkYCeC+++g+ Cs +C+Ce+CkN XP_009108686.1 413 RHKRGCNCKKSNCLKKYCECYQSGVGCSINCRCEGCKNA 451 589***********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	2.4E-19	327	368	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	37.543	328	453	IPR005172	CRC domain
Pfam	PF03638	5.7E-12	330	365	IPR005172	CRC domain
SMART	SM01114	4.2E-17	413	454	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	5.6E-12	415	451	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: 607 aa Download sequence Send to blast
MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS ISNAQTFSSL SFTSPPPVFT 60 TPHVASHKGS RFRSHSNSSD PSNKVVEEAL PEKEPPQILN NDCLTTTTPR VTNDGACEDG 120 ETDLQKMCDD NVKRKSDTPD WETLISDSSD MLIYGSPNDS EAFRCFLQRS SDSKTRLCSG 180 SKPALAPVSQ SNEPESSDAL SVLHRGVRRR CLDFEMPRNN NQTPRCVVPS IGLHLNAIAM 240 SSKDNNNVSK EYSFTGNVKV GLQSSTTTPV LPSDDIVREN ETREEAAGEE GLEEAPVSLA 300 LVEVSQSSPK KKRMCRRKSE QAGEGESSCK RCNCKKSKCL KLYCECFAAG VYCIEPCSCI 360 DCFNKPIHED TVLATRKQIE SRNPLAFAPK VIRNSDSTIE VGEDASKTPA SARHKRGCNC 420 KKSNCLKKYC ECYQSGVGCS INCRCEGCKN AFGRKDGSSF AGMDTEQDQE NETSGKSGTT 480 IPLPPSTPMP LRQPLAQLPI SSNNMLPSQQ SQQHLHGASL YNSQSFRKQD MGLMSQSRIE 540 TIAEERAEDI ENFIHSPVTN INALSPNSKR VSLPHMDSTE TTPWRRNGGR KLLLSSIPTF 600 PSLTPHH

Sequence ? help Back to Top

Protein Sequence Length: 607 aa Download sequence Send to blast

MDTPQKTVTQ IETPVSKLKV ENSPVFNYIN SLSPITTVKS ISNAQTFSSL SFTSPPPVFT  60
TPHVASHKGS RFRSHSNSSD PSNKVVEEAL PEKEPPQILN NDCLTTTTPR VTNDGACEDG  120
ETDLQKMCDD NVKRKSDTPD WETLISDSSD MLIYGSPNDS EAFRCFLQRS SDSKTRLCSG  180
SKPALAPVSQ SNEPESSDAL SVLHRGVRRR CLDFEMPRNN NQTPRCVVPS IGLHLNAIAM  240
SSKDNNNVSK EYSFTGNVKV GLQSSTTTPV LPSDDIVREN ETREEAAGEE GLEEAPVSLA  300
LVEVSQSSPK KKRMCRRKSE QAGEGESSCK RCNCKKSKCL KLYCECFAAG VYCIEPCSCI  360
DCFNKPIHED TVLATRKQIE SRNPLAFAPK VIRNSDSTIE VGEDASKTPA SARHKRGCNC  420
KKSNCLKKYC ECYQSGVGCS INCRCEGCKN AFGRKDGSSF AGMDTEQDQE NETSGKSGTT  480
IPLPPSTPMP LRQPLAQLPI SSNNMLPSQQ SQQHLHGASL YNSQSFRKQD MGLMSQSRIE  540
TIAEERAEDI ENFIHSPVTN INALSPNSKR VSLPHMDSTE TTPWRRNGGR KLLLSSIPTF  600
PSLTPHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	3e-17	332	450	14	120	Protein lin-54 homolog
5fd3_B	3e-17	332	450	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	XP_009108686.1

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-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_009108686.1	0.0	PREDICTED: protein tesmin/TSO1-like CXC 3 isoform X1
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A398AT55	0.0	A0A398AT55_BRACM; Uncharacterized 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]