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

GSBRNA2T00131435001

Common Name

GSBRNA2T00131435001

Organism

Brassica napus

Taxonomic ID

3708

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: 1571aa MW: 175989 Da PI: 8.6903

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00131435001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.5	9.5e-08	1401	1424	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 ++lCr + rtG C G++C+F H+ GSBRNA2T00131435001 1401 RRLCRSYVRTGSCAVGPSCSFDHP 1424 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	3.27E-14	194	326	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
Pfam	PF01582	3.6E-18	202	352	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain
Gene3D	G3DSA:3.40.50.10140	4.2E-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	6.35E-38	341	607	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Pfam	PF00931	8.9E-19	366	613	IPR002182	NB-ARC
Gene3D	G3DSA:3.40.50.300	1.8E-6	369	514	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PRINTS	PR00364	5.5E-21	381	396	No hit	No description
PRINTS	PR00364	5.5E-21	457	471	No hit	No description
PRINTS	PR00364	5.5E-21	548	562	No hit	No description
SuperFamily	SSF46785	2.72E-6	584	688	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:3.40.50.300	2.3E-5	635	684	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52058	5.44E-32	709	964	IPR032675	Leucine-rich repeat domain, L domain-like
Gene3D	G3DSA:3.80.10.10	2.2E-26	713	965	IPR032675	Leucine-rich repeat domain, L domain-like
Pfam	PF07725	1.8E-8	771	790	IPR011713	Leucine-rich repeat 3
PRINTS	PR00364	5.5E-21	860	876	No hit	No description
SuperFamily	SSF52058	1.09E-14	1020	1149	IPR032675	Leucine-rich repeat domain, L domain-like
Gene3D	G3DSA:3.80.10.10	1.2E-12	1036	1141	IPR032675	Leucine-rich repeat domain, L domain-like
PROSITE profile	PS50103	11.291	1398	1426	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-5	1401	1424	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.0E-4	1402	1423	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: 1571 aa Download sequence Send to blast
MDRLRALRRQ GLRDFEPSLP PRFMDRILDR MKKSSSRRGI SRRRLERCSS SLAEDLSVST 60 SSFTTRSLEL 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 ESRLDGSKTL LKLDNLQLRS DIHGSFFSRE AFLPAFEYLS 1020 NNGIPQESWT RVTVIPFPSP ILHSLASRLY ALVSLFLCNA YLVDIPEDIC WLASVMRLDL 1080 GGNSFSQIPK SIKEFRKLHS LNLRHCKNLK SLPELPRSLV TLNAHGCVSL KSFPTSFEQF 1140 PRHFTFSNCF NLSPKVVREY IGKALDSVKG MAKGILQASL EQEHINDPAF NICIPASAGQ 1200 QSSVNFQAGS SVRIQLAPGM LKTLSGFVLS VVVEFWDNYS NTAGFGIKCI CRKSRIDLSP 1260 RLERIFHCWA PKEPITVQRD HMFVFGSVKM HHAEAVNHDF LSDSVTFEFH PVNSENQLVD 1320 DSCTVKRCGV YLITDATSNT ALSAKRPSSS MDPGGLSSME HVAPPYKKCR LKGVIEIVIL 1380 SLRKRKRELS VPTVKNVSTV RRLCRSYVRT GSCAVGPSCS FDHPNWVLTH KTASSIPSES 1440 PPMDMLGLSS YGKPSDKRVE TSTEKPKRLS VSESRQATSG IDTIDAEQEE EGKLILREVH 1500 LGPVSARFEH DHNYRNLEQN EEKELGCHKV LRTETESNSY LKDSQTSIRK PTLSQLLGFN 1560 RFPRLDLLRR *

Sequence ? help Back to Top

Protein Sequence Length: 1571 aa Download sequence Send to blast

MDRLRALRRQ GLRDFEPSLP PRFMDRILDR MKKSSSRRGI SRRRLERCSS SLAEDLSVST  60
SSFTTRSLEL 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 ESRLDGSKTL LKLDNLQLRS DIHGSFFSRE AFLPAFEYLS  1020
NNGIPQESWT RVTVIPFPSP ILHSLASRLY ALVSLFLCNA YLVDIPEDIC WLASVMRLDL  1080
GGNSFSQIPK SIKEFRKLHS LNLRHCKNLK SLPELPRSLV TLNAHGCVSL KSFPTSFEQF  1140
PRHFTFSNCF NLSPKVVREY IGKALDSVKG MAKGILQASL EQEHINDPAF NICIPASAGQ  1200
QSSVNFQAGS SVRIQLAPGM LKTLSGFVLS VVVEFWDNYS NTAGFGIKCI CRKSRIDLSP  1260
RLERIFHCWA PKEPITVQRD HMFVFGSVKM HHAEAVNHDF LSDSVTFEFH PVNSENQLVD  1320
DSCTVKRCGV YLITDATSNT ALSAKRPSSS MDPGGLSSME HVAPPYKKCR LKGVIEIVIL  1380
SLRKRKRELS VPTVKNVSTV RRLCRSYVRT GSCAVGPSCS FDHPNWVLTH KTASSIPSES  1440
PPMDMLGLSS YGKPSDKRVE TSTEKPKRLS VSESRQATSG IDTIDAEQEE EGKLILREVH  1500
LGPVSARFEH DHNYRNLEQN EEKELGCHKV LRTETESNSY LKDSQTSIRK PTLSQLLGFN  1560
RFPRLDLLRR *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ku7_A	6e-14	206	327	23	146	TIR-NB-LRR type resistance protein RPV1
5ku7_B	6e-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	1323	1327	TVKRC

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00131435001

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_013734282.1	0.0	disease resistance protein RRS1-like isoform X1
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-164	Disease resistance protein (TIR-NBS-LRR class)

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]