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_009132855.1

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

C3H

Protein Properties

Length: 1465aa MW: 163684 Da PI: 8.5131

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009132855.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.6	8.8e-08	1375	1398	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 ++lCr + rtG C G++C+F H+ XP_009132855.1 1375 RRLCRSYVRTGSCAVGPSCSFDHP 1398 69*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00255	5.7E-7	187	324	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
SuperFamily	SSF52200	3.01E-14	194	326	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
Pfam	PF01582	3.3E-18	202	352	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
Gene3D	G3DSA:3.40.50.10140	3.9E-4	231	301	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
PROSITE profile	PS50104	10.182	235	324	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
SuperFamily	SSF52540	5.53E-38	341	607	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Pfam	PF00931	8.0E-19	366	613	IPR002182	NB-ARC
Gene3D	G3DSA:3.40.50.300	1.6E-6	369	514	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PRINTS	PR00364	4.2E-21	381	396	No hit	No description
PRINTS	PR00364	4.2E-21	457	471	No hit	No description
PRINTS	PR00364	4.2E-21	548	562	No hit	No description
SuperFamily	SSF46785	2.58E-6	584	688	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:3.40.50.300	2.1E-5	635	684	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52058	1.96E-41	709	955	IPR032675	Leucine-rich repeat domain, L domain-like
Gene3D	G3DSA:3.80.10.10	3.6E-27	713	951	IPR032675	Leucine-rich repeat domain, L domain-like
Pfam	PF07725	1.7E-8	771	790	IPR011713	Leucine-rich repeat 3
PRINTS	PR00364	4.2E-21	860	876	No hit	No description
Gene3D	G3DSA:3.80.10.10	7.6E-13	1010	1115	IPR032675	Leucine-rich repeat domain, L domain-like
SuperFamily	SSF52058	1.96E-41	1023	1120	IPR032675	Leucine-rich repeat domain, L domain-like
PROSITE profile	PS50103	11.291	1372	1400	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-5	1375	1398	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.7E-4	1376	1397	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0007165	Biological Process	signal transduction
GO:0005515	Molecular Function	protein binding
GO:0043531	Molecular Function	ADP binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1465 aa Download sequence Send to blast
MDRLRALRRQ GLRDFEPSLP PRFMDRILDR MKKSSSRRGI SRRRLERCSS SFAEDLSAST 60 SSFATCSMEL PDRTSFRLLA GGGDGELDRI YKSLGVSGPD DLAISFDAWE ACKTRSSSGI 120 VNRFQPQADV LSSGVDSLDR DDTGGVGRFF KEHASEKASE KEHGEMNLKE VETPFQPKLS 180 EHCVTGSDPI LVIYCGDNQV SEEIYLISYI FNELCARGFA PLRYDMKKST VTENQKLLHI 240 SRVGIIIFSM NFAHSRECLD GFVAVMDHLK ANELVLIPVF FKVSVSDVRG QSGSFGKAFT 300 RLGDSVMASQ VLKWRAAMIK LASIIGYAYK KGDEVILAKN IVRDVCLPLS SETNMKLRGT 360 RLSLKSILSL LNRSQPSSSQ IVGLWGMAGI GKTTITRDFF RSQAEQYDVC YFLPDFHLLC 420 QTKGLSYLRD DFFSKIFGAE KVFVDACDTK PSVTRDRFLG KKVLIVLDGV SSAKDAEVLV 480 GGFGWFSGGH TIILTSRNRQ VLVQCNAKVI YEIEKLPKLE SLHLCCKFAS KENCKGRMSL 540 TSELVDYASG NPLALRVLGL SIQNQSMKDQ KQHLRRLRQH PPVKILNAFK ISFNGRDDDE 600 KSIFLDLACF FRGEDRDRVV KILDGCGFST DLGIYGLIDE SLISLVDNKI EMPNIFQDAG 660 RFVVCQEHEE PGNRSRLWDS SDIAGVLKNN TGTEATEGIF LDASGLTFDL SSTAFERMYR 720 LRLLKIHCPT SVNHCKVCLP EGLHSLPDEL RLLHWEKYPL GSLPRNFNPK NLVELNMPYS 780 NLTKVWKGTK NLEKLKRIIL SHSQQLTKFP RLSKARNLEH IDLEGCTSLV KVNSSILHHH 840 KLTFLSLRNC SRLRVMPTTV HLKSLEVLNL SGCSELENLQ DFSLNLKEIY LAGAAIREIP 900 SSIGDLTRLV TLDLENCESL QHLPPGISNL KAMMTLKLSG CSNLKSLPVL DALFLQDSQR 960 SNTRITMEES VSINLHSAIQ ESREAFLPAF EYLSNNGIPQ ESWTRVTVIP FPSPILHSLA 1020 SRLYALVSLF LCNAYLVDIP EDICWLASVM RLDLGGNSFS QIPKSIKEFR KLHSLNLRHC 1080 KNLKSLPELP RSLVTLNAHG CVSLKSFPTS FEQFPRHFTF SNCFNLSPKV VREYIGKALD 1140 SVKGMAKGIL QASLEQEHIN DPAFNICIPA SAGQQSSVNF QAGSSVRIQL APGMLKTLSG 1200 FVLSVVVEFW DNYSNTAGFG IKCICRKSRI DLSPRLERIF HCWAPKEPIT VHRDHMFVFG 1260 SVKMHHAEAV NHDFLSDSVT FEFHPVNSEN QLVDDSCTVK RCGVYLITDA TSNTALSAKR 1320 PSSSMDPGGL SSMEHVAPPY KKCRLKGVIE IVILSLRKRK RELSVPTVKN VSTVRRLCRS 1380 YVRTGSCAVG PSCSFDHPNW VLTHKTASSI PSESPPMDML GLSSYGKPSD KRVETSTEKP 1440 KRLSVSESRQ ATSGIDTIDA EQEEE

Sequence ? help Back to Top

Protein Sequence Length: 1465 aa Download sequence Send to blast

MDRLRALRRQ GLRDFEPSLP PRFMDRILDR MKKSSSRRGI SRRRLERCSS SFAEDLSAST  60
SSFATCSMEL PDRTSFRLLA GGGDGELDRI YKSLGVSGPD DLAISFDAWE ACKTRSSSGI  120
VNRFQPQADV LSSGVDSLDR DDTGGVGRFF KEHASEKASE KEHGEMNLKE VETPFQPKLS  180
EHCVTGSDPI LVIYCGDNQV SEEIYLISYI FNELCARGFA PLRYDMKKST VTENQKLLHI  240
SRVGIIIFSM NFAHSRECLD GFVAVMDHLK ANELVLIPVF FKVSVSDVRG QSGSFGKAFT  300
RLGDSVMASQ VLKWRAAMIK LASIIGYAYK KGDEVILAKN IVRDVCLPLS SETNMKLRGT  360
RLSLKSILSL LNRSQPSSSQ IVGLWGMAGI GKTTITRDFF RSQAEQYDVC YFLPDFHLLC  420
QTKGLSYLRD DFFSKIFGAE KVFVDACDTK PSVTRDRFLG KKVLIVLDGV SSAKDAEVLV  480
GGFGWFSGGH TIILTSRNRQ VLVQCNAKVI YEIEKLPKLE SLHLCCKFAS KENCKGRMSL  540
TSELVDYASG NPLALRVLGL SIQNQSMKDQ KQHLRRLRQH PPVKILNAFK ISFNGRDDDE  600
KSIFLDLACF FRGEDRDRVV KILDGCGFST DLGIYGLIDE SLISLVDNKI EMPNIFQDAG  660
RFVVCQEHEE PGNRSRLWDS SDIAGVLKNN TGTEATEGIF LDASGLTFDL SSTAFERMYR  720
LRLLKIHCPT SVNHCKVCLP EGLHSLPDEL RLLHWEKYPL GSLPRNFNPK NLVELNMPYS  780
NLTKVWKGTK NLEKLKRIIL SHSQQLTKFP RLSKARNLEH IDLEGCTSLV KVNSSILHHH  840
KLTFLSLRNC SRLRVMPTTV HLKSLEVLNL SGCSELENLQ DFSLNLKEIY LAGAAIREIP  900
SSIGDLTRLV TLDLENCESL QHLPPGISNL KAMMTLKLSG CSNLKSLPVL DALFLQDSQR  960
SNTRITMEES VSINLHSAIQ ESREAFLPAF EYLSNNGIPQ ESWTRVTVIP FPSPILHSLA  1020
SRLYALVSLF LCNAYLVDIP EDICWLASVM RLDLGGNSFS QIPKSIKEFR KLHSLNLRHC  1080
KNLKSLPELP RSLVTLNAHG CVSLKSFPTS FEQFPRHFTF SNCFNLSPKV VREYIGKALD  1140
SVKGMAKGIL QASLEQEHIN DPAFNICIPA SAGQQSSVNF QAGSSVRIQL APGMLKTLSG  1200
FVLSVVVEFW DNYSNTAGFG IKCICRKSRI DLSPRLERIF HCWAPKEPIT VHRDHMFVFG  1260
SVKMHHAEAV NHDFLSDSVT FEFHPVNSEN QLVDDSCTVK RCGVYLITDA TSNTALSAKR  1320
PSSSMDPGGL SSMEHVAPPY KKCRLKGVIE IVILSLRKRK RELSVPTVKN VSTVRRLCRS  1380
YVRTGSCAVG PSCSFDHPNW VLTHKTASSI PSESPPMDML GLSSYGKPSD KRVETSTEKP  1440
KRLSVSESRQ ATSGIDTIDA EQEEE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ku7_A	7e-14	206	327	23	146	TIR-NB-LRR type resistance protein RPV1
5ku7_B	7e-14	206	327	23	146	TIR-NB-LRR type resistance protein RPV1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1297	1301	TVKRC

Functional Description ? help Back to Top
Source	Description
UniProt	Disease resistance protein that cooperates with RPP2B to confer resistance to Hyaloperonospora parasitica isolate Cala2. {ECO:0000269\|PubMed:15165183}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009132855.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009132855.1	0.0	PREDICTED: disease resistance protein RRS1 isoform X2
Swissprot	F4JT78	0.0	RPP2A_ARATH; Disease resistance protein RPP2A
TrEMBL	M4DA90	0.0	M4DA90_BRARP; Uncharacterized protein
STRING	Bra013400.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G45260.1	1e-166	Disease resistance protein (TIR-NBS-LRR class)

Publications ? help Back to Top
Meyers BC,Morgante M,Michelmore RW TIR-X and TIR-NBS proteins: two new families related to disease resistance TIR-NBS-LRR proteins encoded in Arabidopsis and other plant genomes. Plant J., 2002. 32(1): p. 77-92 [PMID:12366802] Sinapidou E, et al. Two TIR:NB:LRR genes are required to specify resistance to Peronospora parasitica isolate Cala2 in Arabidopsis. Plant J., 2004. 38(6): p. 898-909 [PMID:15165183] Kempema LA,Cui X,Holzer FM,Walling LL Arabidopsis transcriptome changes in response to phloem-feeding silverleaf whitefly nymphs. Similarities and distinctions in responses to aphids. Plant Physiol., 2007. 143(2): p. 849-65 [PMID:17189325]