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

Csa18g036040.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 1139aa MW: 125967 Da PI: 5.3717

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa18g036040.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	31.9	2.4e-10	181	227	5	55
HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h+ +Er RR++i +++ L++++P + +k Ka +L + ++YI+sLq Csa18g036040.1 181 HSLAERARREKISEKMTALQDIIPGC----NKIIGKALVLDEIINYIQSLQ 227 999*********************....999***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	3.16E-9	174	231	No hit	No description
SuperFamily	SSF47459	4.97E-16	174	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.18	176	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.9E-16	177	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	9.0E-8	181	227	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	9.9E-10	182	232	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF48371	1.19E-51	288	501	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.10.10	6.0E-25	293	496	IPR011989	Armadillo-like helical
Pfam	PF08389	2.5E-19	346	491	IPR013598	Exportin-1/Importin-beta-like
Gene3D	G3DSA:1.25.10.10	6.0E-25	531	869	IPR011989	Armadillo-like helical
SuperFamily	SSF48371	1.19E-51	558	867	IPR016024	Armadillo-type fold
SuperFamily	SSF48371	1.19E-51	916	1093	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.10.10	6.0E-25	953	1045	IPR011989	Armadillo-like helical

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1139 aa Download sequence Send to blast
MDPPLVNDSS FSAANPSSYT LSEIWPFPVN DAVRSGLRLA VNSGRVFTRS EHKDLSAAEE 60 STVTDLTAGW GGRKTKDLNS EDDSSKMVSS SSSGNELFES RSSAQLGDDL KNNSMSQSKE 120 SGDKKRKLCG SESGNGDCSM RPEGETSSGG GSKATEQKNK PEPPKDYIHV RARRGQATDR 180 HSLAERARRE KISEKMTALQ DIIPGCNKII GKALVLDEII NYIQSLQRQV EFLSMKLEVV 240 NSGASTGPTI GVFPSGDLGT LPIDVHRTIY EQQEANEARG TQPEWLHMQV ADNLLHDSSS 300 NLETLIFCSQ TLRSKVQRDF EELPPGAFQK LRESLTTLLK KFHKGPPKVR TQISIAVAAL 360 AVHVPAADWG DGGIVSWLRD EMNMHPEYVP GFLELLTVLP EETFNYKIAA RPDRRRQFEK 420 ELTSQMEAAL SILTACLSII ELKEQVLEAF ASWLRLRHGI PGAVLACHPL VHSALSSLNC 480 DPLSEASVNV ISELIHHTAS PSSGGISAQT PLIQVIVPQI LSLKIHLRDS SKDEEDVKAI 540 GRLFADVGDS YVELIATGSD ESMVIVHTLL EVTSHPEFDI ASMTFNFWHS LQLMLTKRDS 600 YSSLGSEASI EAERNRRLHI FQPAYQSLVS LVGFRVQYPE DYQGLSYEDL KEFKQTRYAV 660 ADVLIDAALI LGGDTTLRIL YMKLLEANAQ TGNDFQEWRP AEAILFCIWA ISNYVSVVEA 720 EVMPQVMALL QNLPQQAQLL QTACLLVGAY SKWLNAAPAS VSILPSIIRI LMSGMGTSED 780 CAAAAALAFR HICDDCRKNL CGYFEDLFAI YCMAINGGGG YKVSAEDSLN LVEALGMVVT 840 ELPLDQAKGA LEKLCFSAAS PLEEAAKEDL DKKHARELTV HIDRFAFLFR YVNHPEAVAA 900 EINKHWAIFR VIFDARPWDM RTMESLCRAC KYAVRTSGRY IINTIGEMLA KIQFHYQQHH 960 QPCFLYLSSE VIKIFGSDPS CADYLKNLIE TLFAHTTCLM TSIKEVTARP DIADDCFLLA 1020 SRCLRYCPHL FIPSPIFPPL VDCAMIGITV QHREACHSIL TFLSDIFDLE KSVNEEQFTE 1080 STKFLQALSD VAYGADVNSL IGHVEELSDV CRRNRTVQDL VQAALKPLEL NLAAAPVS*

Sequence ? help Back to Top

Protein Sequence Length: 1139 aa Download sequence Send to blast

MDPPLVNDSS FSAANPSSYT LSEIWPFPVN DAVRSGLRLA VNSGRVFTRS EHKDLSAAEE  60
STVTDLTAGW GGRKTKDLNS EDDSSKMVSS SSSGNELFES RSSAQLGDDL KNNSMSQSKE  120
SGDKKRKLCG SESGNGDCSM RPEGETSSGG GSKATEQKNK PEPPKDYIHV RARRGQATDR  180
HSLAERARRE KISEKMTALQ DIIPGCNKII GKALVLDEII NYIQSLQRQV EFLSMKLEVV  240
NSGASTGPTI GVFPSGDLGT LPIDVHRTIY EQQEANEARG TQPEWLHMQV ADNLLHDSSS  300
NLETLIFCSQ TLRSKVQRDF EELPPGAFQK LRESLTTLLK KFHKGPPKVR TQISIAVAAL  360
AVHVPAADWG DGGIVSWLRD EMNMHPEYVP GFLELLTVLP EETFNYKIAA RPDRRRQFEK  420
ELTSQMEAAL SILTACLSII ELKEQVLEAF ASWLRLRHGI PGAVLACHPL VHSALSSLNC  480
DPLSEASVNV ISELIHHTAS PSSGGISAQT PLIQVIVPQI LSLKIHLRDS SKDEEDVKAI  540
GRLFADVGDS YVELIATGSD ESMVIVHTLL EVTSHPEFDI ASMTFNFWHS LQLMLTKRDS  600
YSSLGSEASI EAERNRRLHI FQPAYQSLVS LVGFRVQYPE DYQGLSYEDL KEFKQTRYAV  660
ADVLIDAALI LGGDTTLRIL YMKLLEANAQ TGNDFQEWRP AEAILFCIWA ISNYVSVVEA  720
EVMPQVMALL QNLPQQAQLL QTACLLVGAY SKWLNAAPAS VSILPSIIRI LMSGMGTSED  780
CAAAAALAFR HICDDCRKNL CGYFEDLFAI YCMAINGGGG YKVSAEDSLN LVEALGMVVT  840
ELPLDQAKGA LEKLCFSAAS PLEEAAKEDL DKKHARELTV HIDRFAFLFR YVNHPEAVAA  900
EINKHWAIFR VIFDARPWDM RTMESLCRAC KYAVRTSGRY IINTIGEMLA KIQFHYQQHH  960
QPCFLYLSSE VIKIFGSDPS CADYLKNLIE TLFAHTTCLM TSIKEVTARP DIADDCFLLA  1020
SRCLRYCPHL FIPSPIFPPL VDCAMIGITV QHREACHSIL TFLSDIFDLE KSVNEEQFTE  1080
STKFLQALSD VAYGADVNSL IGHVEELSDV CRRNRTVQDL VQAALKPLEL NLAAAPVS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4c0p_A	2e-62	289	1067	45	803	TRANSPORTIN-3
4c0p_B	2e-62	289	1067	45	803	TRANSPORTIN-3
4c0p_C	2e-62	289	1067	45	803	TRANSPORTIN-3
4c0p_D	2e-62	289	1067	45	803	TRANSPORTIN-3
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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	Csa18g036040.1

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	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_010485287.1	0.0	PREDICTED: transportin MOS14-like
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-159	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]