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_009135826.1

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: 591aa MW: 64837.6 Da PI: 8.4808

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009135826.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	49.6	8.1e-16	311	349	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+C+CkkskClk+YCeCfa+g++C +C+C dC+Nk XP_009135826.1 311 SCKRCHCKKSKCLKLYCECFASGVYCIVSCSCVDCFNKP 349 689**********************************96 PP
2	TCR	50.3	4.7e-16	397	436	1	40
TCR 1 kekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNke 40 ++k+gCnCkks+C+kkYCeC+++g+ Cs +C+Ce+CkN XP_009135826.1 397 RHKRGCNCKKSNCVKKYCECYQSGVGCSINCRCEGCKNAF 436 589***********************************75 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01114	3.7E-18	310	351	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	36.278	311	437	IPR005172	CRC domain
Pfam	PF03638	1.9E-11	313	348	IPR005172	CRC domain
SMART	SM01114	2.8E-16	397	438	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	1.4E-11	399	435	IPR005172	CRC domain

Sequence ? help Back to Top
Protein Sequence Length: 591 aa Download sequence Send to blast
METPQKTIIQ NGTAVSKLKN SPVFNYINNL SPIKPVRSIP IAQTFGSLSP SVYTPPHKGS 60 RFKSHTYFSD PAKELVEEAL LETVPPKILK NDCISTPPSR AAANDGSCGD GKTDLQKLCD 120 GNVKRKSDTP DWETQFPDTP EMLIYDTLND SEADRCFLPA SSDLKRRSCG GTKPRLEPVS 180 NSKELADALH RGVRRRLLDF EMPDNQTSEK SSSSCVVPPS TGLHLNTAFA MSSKDTNEYS 240 LSANIKVGLQ NSTPPVLHSH DILRENETGE AAGQSVVEEI QKSSLALVEM NQSSPKKKRL 300 KSDQAGEGES SCKRCHCKKS KCLKLYCECF ASGVYCIVSC SCVDCFNKPI HEDTVLATRK 360 QIESRNPIAF APKVIRNTDS SIMEAGVDAS KTPASVRHKR GCNCKKSNCV KKYCECYQSG 420 VGCSINCRCE GCKNAFGKKD VSSFVGMDIK QDGESKTGQT QQNNELFSYV PLPPSTPMSL 480 RQPLAQLPIS SNNMLLPQQS QQLHGASGSF LYENQSFRKQ GMGLLSRTET ITEDIENVIP 540 SPITNINAVS PNSKRVSLPH LDPPVLTPRR RNGERKLLLS IPAFPSLPPH H

Sequence ? help Back to Top

Protein Sequence Length: 591 aa Download sequence Send to blast

METPQKTIIQ NGTAVSKLKN SPVFNYINNL SPIKPVRSIP IAQTFGSLSP SVYTPPHKGS  60
RFKSHTYFSD PAKELVEEAL LETVPPKILK NDCISTPPSR AAANDGSCGD GKTDLQKLCD  120
GNVKRKSDTP DWETQFPDTP EMLIYDTLND SEADRCFLPA SSDLKRRSCG GTKPRLEPVS  180
NSKELADALH RGVRRRLLDF EMPDNQTSEK SSSSCVVPPS TGLHLNTAFA MSSKDTNEYS  240
LSANIKVGLQ NSTPPVLHSH DILRENETGE AAGQSVVEEI QKSSLALVEM NQSSPKKKRL  300
KSDQAGEGES SCKRCHCKKS KCLKLYCECF ASGVYCIVSC SCVDCFNKPI HEDTVLATRK  360
QIESRNPIAF APKVIRNTDS SIMEAGVDAS KTPASVRHKR GCNCKKSNCV KKYCECYQSG  420
VGCSINCRCE GCKNAFGKKD VSSFVGMDIK QDGESKTGQT QQNNELFSYV PLPPSTPMSL  480
RQPLAQLPIS SNNMLLPQQS QQLHGASGSF LYENQSFRKQ GMGLLSRTET ITEDIENVIP  540
SPITNINAVS PNSKRVSLPH LDPPVLTPRR RNGERKLLLS IPAFPSLPPH H

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5fd3_A	2e-16	315	434	14	120	Protein lin-54 homolog
5fd3_B	2e-16	315	434	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009135826.1

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	AC189327	0.0	AC189327.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB037A01, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009135826.1	0.0	PREDICTED: protein tesmin/TSO1-like CXC 3
Swissprot	Q8L548	0.0	TCX3_ARATH; Protein tesmin/TSO1-like CXC 3
TrEMBL	A0A398A4M3	0.0	A0A398A4M3_BRACM; Uncharacterized protein
STRING	Bra001884.1-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]