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_009132847.1

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: 1466aa MW: 163771 Da PI: 8.5131

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009132847.1	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	1376	1399	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 ++lCr + rtG C G++C+F H+ XP_009132847.1 1376 RRLCRSYVRTGSCAVGPSCSFDHP 1399 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	2.89E-33	709	951	IPR032675	Leucine-rich repeat domain, L domain-like
Gene3D	G3DSA:3.80.10.10	6.9E-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
SuperFamily	SSF52058	1.8E-19	885	964	IPR032675	Leucine-rich repeat domain, L domain-like
Gene3D	G3DSA:3.80.10.10	1.0E-12	1011	1116	IPR032675	Leucine-rich repeat domain, L domain-like
SuperFamily	SSF52058	1.8E-19	1016	1117	IPR032675	Leucine-rich repeat domain, L domain-like
PROSITE profile	PS50103	11.291	1373	1401	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.4E-5	1376	1399	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.7E-4	1377	1398	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: 1466 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 ESSREAFLPA FEYLSNNGIP QESWTRVTVI PFPSPILHSL 1020 ASRLYALVSL FLCNAYLVDI PEDICWLASV MRLDLGGNSF SQIPKSIKEF RKLHSLNLRH 1080 CKNLKSLPEL PRSLVTLNAH GCVSLKSFPT SFEQFPRHFT FSNCFNLSPK VVREYIGKAL 1140 DSVKGMAKGI LQASLEQEHI NDPAFNICIP ASAGQQSSVN FQAGSSVRIQ LAPGMLKTLS 1200 GFVLSVVVEF WDNYSNTAGF GIKCICRKSR IDLSPRLERI FHCWAPKEPI TVHRDHMFVF 1260 GSVKMHHAEA VNHDFLSDSV TFEFHPVNSE NQLVDDSCTV KRCGVYLITD ATSNTALSAK 1320 RPSSSMDPGG LSSMEHVAPP YKKCRLKGVI EIVILSLRKR KRELSVPTVK NVSTVRRLCR 1380 SYVRTGSCAV GPSCSFDHPN WVLTHKTASS IPSESPPMDM LGLSSYGKPS DKRVETSTEK 1440 PKRLSVSESR QATSGIDTID AEQEEE

Sequence ? help Back to Top

Protein Sequence Length: 1466 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 ESSREAFLPA FEYLSNNGIP QESWTRVTVI PFPSPILHSL  1020
ASRLYALVSL FLCNAYLVDI PEDICWLASV MRLDLGGNSF SQIPKSIKEF RKLHSLNLRH  1080
CKNLKSLPEL PRSLVTLNAH GCVSLKSFPT SFEQFPRHFT FSNCFNLSPK VVREYIGKAL  1140
DSVKGMAKGI LQASLEQEHI NDPAFNICIP ASAGQQSSVN FQAGSSVRIQ LAPGMLKTLS  1200
GFVLSVVVEF WDNYSNTAGF GIKCICRKSR IDLSPRLERI FHCWAPKEPI TVHRDHMFVF  1260
GSVKMHHAEA VNHDFLSDSV TFEFHPVNSE NQLVDDSCTV KRCGVYLITD ATSNTALSAK  1320
RPSSSMDPGG LSSMEHVAPP YKKCRLKGVI EIVILSLRKR KRELSVPTVK NVSTVRRLCR  1380
SYVRTGSCAV GPSCSFDHPN WVLTHKTASS IPSESPPMDM LGLSSYGKPS DKRVETSTEK  1440
PKRLSVSESR QATSGIDTID AEQEEE

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	1298	1302	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_009132847.1

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_009132847.1	0.0	PREDICTED: disease resistance protein RRS1 isoform X1
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)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5462	9	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G45260.1	1e-167	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]