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

676739666

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

bHLH

Protein Properties

Length: 1167aa MW: 128692 Da PI: 5.5491

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676739666	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	31.8	2.5e-10	168	214	5	55
HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h+ +Er RR++i +++ L++++P + +k Ka +L + ++YI+sLq 676739666 168 HSLAERARREKISEKMTALQDIIPGC----NKIIGKALVLDEIINYIQSLQ 214 999*********************....999***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	3.11E-9	161	218	No hit	No description
SuperFamily	SSF47459	5.23E-16	161	228	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.18	163	213	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.0E-16	164	228	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	9.3E-8	168	214	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	9.9E-10	169	219	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF48371	2.98E-44	275	467	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.10.10	2.2E-20	302	462	IPR011989	Armadillo-like helical
Pfam	PF08389	1.8E-19	312	457	IPR013598	Exportin-1/Importin-beta-like
Gene3D	G3DSA:1.25.10.10	2.2E-20	497	828	IPR011989	Armadillo-like helical
SuperFamily	SSF48371	2.98E-44	524	833	IPR016024	Armadillo-type fold
SuperFamily	SSF48371	2.98E-44	869	1040	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.10.10	2.2E-20	915	995	IPR011989	Armadillo-like helical

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006606	Biological Process	protein import into nucleus
GO:0043484	Biological Process	regulation of RNA splicing
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1167 aa Download sequence Send to blast
MDPPLVNDSS FSAANPSSYT LSEIWPFPVN DAVRSNLRLA VNSGRGFPTR SDLAEHSGNK 60 DVSAAAEEST VTDLTAGWGG RKARDLNSED DSSKIVSSSS SGNELKESGD KKRKLCGSES 120 GNGEGSMRPE GETSSGGGSK ATEQKNKPEP PKDYIHVRAR RGQATDRHSL AERARREKIS 180 EKMTALQDII PGCNKIIGKA LVLDEIINYI QSLQRQVEFL SMKLEVVNSG ASTGPTIGVF 240 PTGDLGTLPV DVHRSIYEQQ EANESRGSHP EWLHMQVADN LLHDSSSNLE TLIFCSQTLR 300 SKTLLKKFHK GPPKVRTQIS IAVAALAVHV PAADWGDGGI VSWLRDEMNM HPEYVPGFLE 360 LLTVLPEETF NYKIAARPDR RRQFENELTS QMEAALTILN ACLNIIELKE QVLEAFASWL 420 RLRHGIPGAV LACHPLVHAA LSSLNCDPLS EASVNVISEL IHHTASPSSG GISAQTPLIQ 480 VIVPQILSLK AHLRDSSKDE EDVKAIGRLF ADVGDSYVEL IATGSDESMV IVHALLEVTS 540 HPEFDIASMT FNFWHSLQLT LTKRDSYISL GSEASIEAER NRRQHVFRPA YENLVSLVGF 600 RVQYPEDYQG LSYEDLKEFK QTRYAVADVL IDAALILGGD TTLKILYMKL LEANAQTGND 660 FQEWRPAEAI LFCIWAISNY VSVVEAEVMP QVMALLQNLP QQAQLLQTAC LLVGAYSKWL 720 NAAPASVSIL PSIIRILMSG MGTSEDCAAA AALAFRHICD DCRKNLCGYF EDLFTIYCMA 780 INGGGGYKVS AEDSLNLVEA LGMVVTELPL DQAKSALEKL CLSAASPLEA YNDRNYKYVN 840 QEAAKDDLDK KHARELTVHI DRFAYLFSRP WDMRTMESLC RACKYAVSFA PSLFEVRTSG 900 RYIINTIGEM LAKIQFHYQQ HHQPCFLYLS SEVIKIFGSD PSCADYLKNL IETLFAHTTC 960 LMTSIKEVTA RPDIADDCFL LASRCLRYCP HLFIPSPIFS PIVDCAMIGM TVQHREACHS 1020 ILTFLSDIFD LEKSVNEEQF VRIRDSVIIP RGATITRILI SSLAGALPSS RLDTVTYSLL 1080 ALTRTYGLQA VGWAKESVSL IPRTAVTETE STKFLQALSD VAYGADVNSL IGHAEELSDV 1140 CRRNRTVQEL VQAALKPLEL NLVAPVS

Sequence ? help Back to Top

Protein Sequence Length: 1167 aa Download sequence Send to blast

MDPPLVNDSS FSAANPSSYT LSEIWPFPVN DAVRSNLRLA VNSGRGFPTR SDLAEHSGNK  60
DVSAAAEEST VTDLTAGWGG RKARDLNSED DSSKIVSSSS SGNELKESGD KKRKLCGSES  120
GNGEGSMRPE GETSSGGGSK ATEQKNKPEP PKDYIHVRAR RGQATDRHSL AERARREKIS  180
EKMTALQDII PGCNKIIGKA LVLDEIINYI QSLQRQVEFL SMKLEVVNSG ASTGPTIGVF  240
PTGDLGTLPV DVHRSIYEQQ EANESRGSHP EWLHMQVADN LLHDSSSNLE TLIFCSQTLR  300
SKTLLKKFHK GPPKVRTQIS IAVAALAVHV PAADWGDGGI VSWLRDEMNM HPEYVPGFLE  360
LLTVLPEETF NYKIAARPDR RRQFENELTS QMEAALTILN ACLNIIELKE QVLEAFASWL  420
RLRHGIPGAV LACHPLVHAA LSSLNCDPLS EASVNVISEL IHHTASPSSG GISAQTPLIQ  480
VIVPQILSLK AHLRDSSKDE EDVKAIGRLF ADVGDSYVEL IATGSDESMV IVHALLEVTS  540
HPEFDIASMT FNFWHSLQLT LTKRDSYISL GSEASIEAER NRRQHVFRPA YENLVSLVGF  600
RVQYPEDYQG LSYEDLKEFK QTRYAVADVL IDAALILGGD TTLKILYMKL LEANAQTGND  660
FQEWRPAEAI LFCIWAISNY VSVVEAEVMP QVMALLQNLP QQAQLLQTAC LLVGAYSKWL  720
NAAPASVSIL PSIIRILMSG MGTSEDCAAA AALAFRHICD DCRKNLCGYF EDLFTIYCMA  780
INGGGGYKVS AEDSLNLVEA LGMVVTELPL DQAKSALEKL CLSAASPLEA YNDRNYKYVN  840
QEAAKDDLDK KHARELTVHI DRFAYLFSRP WDMRTMESLC RACKYAVSFA PSLFEVRTSG  900
RYIINTIGEM LAKIQFHYQQ HHQPCFLYLS SEVIKIFGSD PSCADYLKNL IETLFAHTTC  960
LMTSIKEVTA RPDIADDCFL LASRCLRYCP HLFIPSPIFS PIVDCAMIGM TVQHREACHS  1020
ILTFLSDIFD LEKSVNEEQF VRIRDSVIIP RGATITRILI SSLAGALPSS RLDTVTYSLL  1080
ALTRTYGLQA VGWAKESVSL IPRTAVTETE STKFLQALSD VAYGADVNSL IGHAEELSDV  1140
CRRNRTVQEL VQAALKPLEL NLVAPVS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4c0p_A	5e-45	276	1141	45	912	TRANSPORTIN-3
4c0p_B	5e-45	276	1141	45	912	TRANSPORTIN-3
4c0p_C	5e-45	276	1141	45	912	TRANSPORTIN-3
4c0p_D	5e-45	276	1141	45	912	TRANSPORTIN-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	104	113	LKESGDKKRK

Functional Description ? help Back to Top
Source	Description
UniProt	Functions as nuclear import receptor for serine-arginine rich (SR) proteins. Regulates nuclear import of SR proteins that are required for proper splicing of the two resistance (R) genes SNC1 and RPS4, a crucial step for their functions in plant immunity. {ECO:0000269\|PubMed:21738492}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676739666

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	AK229829	0.0	AK229829.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL21-96-I22.
GenBank	AK230415	0.0	AK230415.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL25-31-G24.
GenBank	BT002408	0.0	BT002408.1 Arabidopsis thaliana unknown protein (At5g62590) mRNA, complete cds.
GenBank	BT010552	0.0	BT010552.1 Arabidopsis thaliana At5g62590 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006394374.1	0.0	transportin MOS14
Swissprot	Q8GUL2	0.0	MOS14_ARATH; Transportin MOS14
TrEMBL	M4F488	0.0	M4F488_BRARP; Uncharacterized protein
STRING	Bra035888.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7543	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62610.1	1e-162	bHLH family protein

Publications ? help Back to Top
Schlueter SD,Dong Q,Brendel V GeneSeqer@PlantGDB: Gene structure prediction in plant genomes. Nucleic Acids Res., 2003. 31(13): p. 3597-600 [PMID:12824374] Merkle T Nucleo-cytoplasmic partitioning of proteins in plants: implications for the regulation of environmental and developmental signalling. Curr. Genet., 2003. 44(5): p. 231-60 [PMID:14523572] Xu S, et al. Transportin-SR is required for proper splicing of resistance genes and plant immunity. PLoS Genet., 2011. 7(6): p. e1002159 [PMID:21738492] Zhang CJ, et al. The splicing machinery promotes RNA-directed DNA methylation and transcriptional silencing in Arabidopsis. EMBO J., 2013. 32(8): p. 1128-40 [PMID:23524848]