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

GSBRNA2T00132210001

Common Name

GSBRNA2T00132210001

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

CPP

Protein Properties

Length: 1297aa MW: 141396 Da PI: 7.2607

Description

CPP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00132210001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCR	40.7	4.7e-13	346	386	2	40
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCsee..CkCedCkNke 40 ++k+C+CkkskCl++ CeCfa g++C+ e C+C+dC+Nk GSBRNA2T00132210001 346 SRKRCKCKKSKCLQLLCECFATGVYCTTEppCSCTDCFNKP 386 5799*********************9889******96 PP
2	TCR	35	2.8e-11	437	473	2	39
TCR 2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 +k gCnCkks+C+k YC+Cf+ g+ C+ +CkCe+C Nk GSBRNA2T00132210001 437 RKSGCNCKKSNCQK-YCQCFKGGVGCTVNCKCEGCGNK 473 689*******86.********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00667	3.6E-4	8	40	IPR006594	LIS1 homology motif
PROSITE profile	PS50896	9.708	8	40	IPR006594	LIS1 homology motif
Pfam	PF08513	1.3E-6	10	35	IPR006594	LIS1 homology motif
PROSITE profile	PS50896	8.244	76	108	IPR006594	LIS1 homology motif
SMART	SM00667	0.53	76	108	IPR006594	LIS1 homology motif
Pfam	PF08513	1.6E-5	80	103	IPR006594	LIS1 homology motif
SMART	SM01114	5.9E-12	345	388	IPR033467	Tesmin/TSO1-like CXC domain
PROSITE profile	PS51634	29.656	346	475	IPR005172	CRC domain
Pfam	PF03638	2.3E-9	348	385	IPR005172	CRC domain
SMART	SM01114	3.2E-7	436	476	IPR033467	Tesmin/TSO1-like CXC domain
Pfam	PF03638	3.6E-7	439	473	IPR005172	CRC domain
PROSITE profile	PS50896	9.822	520	552	IPR006594	LIS1 homology motif
SMART	SM00667	2.0E-4	520	552	IPR006594	LIS1 homology motif
Pfam	PF08513	2.0E-7	522	547	IPR006594	LIS1 homology motif
Gene3D	G3DSA:2.130.10.10	1.2E-69	995	1296	IPR015943	WD40/YVTN repeat-like-containing domain
SuperFamily	SSF50978	9.83E-64	1005	1296	IPR017986	WD40-repeat-containing domain
SMART	SM00320	4.4E-6	1006	1045	IPR001680	WD40 repeat
CDD	cd00200	1.31E-69	1009	1296	No hit	No description
PROSITE profile	PS50082	10.676	1013	1048	IPR001680	WD40 repeat
PROSITE profile	PS50294	39.601	1013	1296	IPR017986	WD40-repeat-containing domain
Pfam	PF00400	9.1E-4	1020	1045	IPR001680	WD40 repeat
PRINTS	PR00320	1.7E-5	1032	1046	IPR020472	G-protein beta WD-40 repeat
PROSITE pattern	PS00678	0	1032	1046	IPR019775	WD40 repeat, conserved site
SMART	SM00320	1.1E-6	1046	1087	IPR001680	WD40 repeat
PROSITE profile	PS50082	13.349	1055	1089	IPR001680	WD40 repeat
Pfam	PF00400	3.7E-6	1058	1087	IPR001680	WD40 repeat
PROSITE pattern	PS00678	0	1074	1088	IPR019775	WD40 repeat, conserved site
PRINTS	PR00320	1.7E-5	1074	1088	IPR020472	G-protein beta WD-40 repeat
SMART	SM00320	1.8E-6	1091	1131	IPR001680	WD40 repeat
Pfam	PF00400	0.045	1095	1131	IPR001680	WD40 repeat
PROSITE profile	PS50082	11.077	1098	1140	IPR001680	WD40 repeat
SMART	SM00320	23	1134	1172	IPR001680	WD40 repeat
SMART	SM00320	3.1E-8	1175	1213	IPR001680	WD40 repeat
Pfam	PF00400	6.8E-6	1179	1213	IPR001680	WD40 repeat
PROSITE profile	PS50082	11.712	1182	1222	IPR001680	WD40 repeat
SMART	SM00320	0.58	1216	1255	IPR001680	WD40 repeat
SMART	SM00320	2.6E-4	1257	1296	IPR001680	WD40 repeat
Pfam	PF00400	0.035	1263	1296	IPR001680	WD40 repeat
PROSITE profile	PS50082	12.346	1264	1296	IPR001680	WD40 repeat
PRINTS	PR00320	1.7E-5	1283	1296	IPR020472	G-protein beta WD-40 repeat

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 1297 aa Download sequence Send to blast
MAQSNLEADK MLDAYIYDHL VKKKLHNTAK SFMTEGKVSP DLVAIDAPGG FLFEWWSVFW 60 EMYYARTKEK HDESAVEYGL NVYIYDYLVK KKLHYTANSF MTEVKVSPDH VVTDTPGGFL 120 FEWWSVFWDV YIAKTNEKHS ESAAEAQQGN TKEQMKQPVP MNTEPHMDAG TGHHGQMVQG 180 NNQGGVSAAL QSRTQQTPLI NMPPVQHSSS QQQDPLLSQQ SQQNNSTGTG NTVGSSNSQP 240 STHSTHTPVE GVAMTGNMPK GPMMYGSDAI GGLASSANQL PQQGKAEEEQ IQMKQPNPVN 300 TETSGTNNHG EIVQGNGQGG GVSAAVLKQL KSQTQQTPLE AGEGESRKRC KCKKSKCLQL 360 LCECFATGVY CTTEPPCSCT DCFNKPIHED TVLAPARKKY ESRNPLGFAP RVIRSSDSVL 420 KTREEDDASK SPASARRKSG CNCKKSNCQK YCQCFKGGVG CTVNCKCEGC GNKFGVKASQ 480 RQCLISSFED RIRVLKHTDS FGLTQLDLGA EAMAQSNWEA DKMLDVYIYD YLVKKKLHNT 540 AKSFMTEGKV SPDPVAIDAP GGFLFEWWSV FWDIFIARTN EKHSESAAAY IEAQQGKAKE 600 QQMQLQQLQM MRQAQMQRRE PSLGGPMNAI VSDGMVGQSN NASAMAAKMY EERMKQPNPM 660 NAETSQPHMD PRMALLKSGT SHHGQMVQGN HQGGVSAALQ QLQSRTQQTP EIKSEVNLGA 720 SPRQLPVDPS TVYGQGILQS KPGMGSAGLN PGVGALPLKG WPLTGIDSMR QGLGPQVQKA 780 FLQNQGQFQL SPQQQQQQQI MAQVQGQGNM TNSSMYGDMD SRRFTGLPRG NLNSKDGQQN 840 ANDGSIGSPM LSNSSKLINM PQAQQSSSQQ QDPLLSQQSQ QNNRKRKGPS SSGPANSTGT 900 GNTVGPSNSQ PSTPSTHTPV EGVAMTGNMQ HVNNMPKGPM MYGSDAIGGL ASSANQLEYM 960 EPFGDVGALE DNVESFLSQD DGDGGSLFGT LKRNPSEHTE TSKVFSFNEV GSIRRSASKV 1020 ICCNFSSDGK LLASAGHDKK VFIWNMETLH TEIPPEEHGH IITDVRFQPN STQLATSSFD 1080 KTIKIWDVSK PGYFVRTISG HNAPVMSLDF HPKKTDLFCS CDTNNEIRFW SINAANCLRV 1140 FQAQGASTQV RFQPKVGQML AAASENIVSI FDVEQYRGVH SFKGHSSSVH SICWNPTGDL 1200 VASVSEDSVK VWSVGSGECI HELSSSGNKF HSCVYHPTYP NLLVIGGYQS LELWDTGENK 1260 CMTIAAHECV ISALAQSSST GMMASASHDK SVKIWK*

Sequence ? help Back to Top

Protein Sequence Length: 1297 aa Download sequence Send to blast

MAQSNLEADK MLDAYIYDHL VKKKLHNTAK SFMTEGKVSP DLVAIDAPGG FLFEWWSVFW  60
EMYYARTKEK HDESAVEYGL NVYIYDYLVK KKLHYTANSF MTEVKVSPDH VVTDTPGGFL  120
FEWWSVFWDV YIAKTNEKHS ESAAEAQQGN TKEQMKQPVP MNTEPHMDAG TGHHGQMVQG  180
NNQGGVSAAL QSRTQQTPLI NMPPVQHSSS QQQDPLLSQQ SQQNNSTGTG NTVGSSNSQP  240
STHSTHTPVE GVAMTGNMPK GPMMYGSDAI GGLASSANQL PQQGKAEEEQ IQMKQPNPVN  300
TETSGTNNHG EIVQGNGQGG GVSAAVLKQL KSQTQQTPLE AGEGESRKRC KCKKSKCLQL  360
LCECFATGVY CTTEPPCSCT DCFNKPIHED TVLAPARKKY ESRNPLGFAP RVIRSSDSVL  420
KTREEDDASK SPASARRKSG CNCKKSNCQK YCQCFKGGVG CTVNCKCEGC GNKFGVKASQ  480
RQCLISSFED RIRVLKHTDS FGLTQLDLGA EAMAQSNWEA DKMLDVYIYD YLVKKKLHNT  540
AKSFMTEGKV SPDPVAIDAP GGFLFEWWSV FWDIFIARTN EKHSESAAAY IEAQQGKAKE  600
QQMQLQQLQM MRQAQMQRRE PSLGGPMNAI VSDGMVGQSN NASAMAAKMY EERMKQPNPM  660
NAETSQPHMD PRMALLKSGT SHHGQMVQGN HQGGVSAALQ QLQSRTQQTP EIKSEVNLGA  720
SPRQLPVDPS TVYGQGILQS KPGMGSAGLN PGVGALPLKG WPLTGIDSMR QGLGPQVQKA  780
FLQNQGQFQL SPQQQQQQQI MAQVQGQGNM TNSSMYGDMD SRRFTGLPRG NLNSKDGQQN  840
ANDGSIGSPM LSNSSKLINM PQAQQSSSQQ QDPLLSQQSQ QNNRKRKGPS SSGPANSTGT  900
GNTVGPSNSQ PSTPSTHTPV EGVAMTGNMQ HVNNMPKGPM MYGSDAIGGL ASSANQLEYM  960
EPFGDVGALE DNVESFLSQD DGDGGSLFGT LKRNPSEHTE TSKVFSFNEV GSIRRSASKV  1020
ICCNFSSDGK LLASAGHDKK VFIWNMETLH TEIPPEEHGH IITDVRFQPN STQLATSSFD  1080
KTIKIWDVSK PGYFVRTISG HNAPVMSLDF HPKKTDLFCS CDTNNEIRFW SINAANCLRV  1140
FQAQGASTQV RFQPKVGQML AAASENIVSI FDVEQYRGVH SFKGHSSSVH SICWNPTGDL  1200
VASVSEDSVK VWSVGSGECI HELSSSGNKF HSCVYHPTYP NLLVIGGYQS LELWDTGENK  1260
CMTIAAHECV ISALAQSSST GMMASASHDK SVKIWK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2ymu_A	9e-26	1017	1295	13	577	WD-40 REPEAT PROTEIN
2ymu_B	9e-26	1017	1295	13	577	WD-40 REPEAT PROTEIN
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.10648	0.0	flower\| leaf\| microspore\| microspore-derived embryo\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Accumulates throughout young developing leaves, before being confined to the vasculature of older leaves (PubMed:19837869). Expressed during seed coat development, reaching peak expression late in differentiation at 10 days post anthesis (DPA) (PubMed:21518777). {ECO:0000269\|PubMed:19837869, ECO:0000269\|PubMed:21518777}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems, leaves, seedlings, apex, flowers, siliques, flower organs and seeds (including seed coat). {ECO:0000269\|PubMed:18390806, ECO:0000269\|PubMed:21518777}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription repressor subunit of the SEU-SLK1 and SEU-SLK2 transcriptional corepressor of abiotic stress (e.g. salt and osmotic stress) response genes, by means of an epigenetic process involving histone modification (e.g. H3K9 and H3K14 acetylation), probably by recruiting HDAC, to facilitate the condensation of chromatin thus preventing transcription at the target genes (PubMed:24564815). Can also act as a transcription activator (PubMed:21518777). Implicated in embryo and floral development (PubMed:18390806). Involved in post-synthesis cell wall modifications necessary for mucilage extrusion from seeds upon imbibition, probably by promoting the expression of genes required for mucilage maturation (e.g. MUM2) (PubMed:11706181, PubMed:21362134, PubMed:21402796, PubMed:21518777). Regulates the maintenance on leaf polarity and meristem activity as well as the initiation of embryonic shoot apical meristem (SAM) development (PubMed:19837869). {ECO:0000269\|PubMed:11706181, ECO:0000269\|PubMed:18390806, ECO:0000269\|PubMed:19837869, ECO:0000269\|PubMed:21362134, ECO:0000269\|PubMed:21402796, ECO:0000269\|PubMed:21518777, ECO:0000269\|PubMed:24564815}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00132210001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by exposures to biotic stress (e.g. nematode and Botrytis cinerea) and abiotic stress (e.g. salt, genotoxic, wounding, drought and oxidative stress). Repressed by exposures to biotic stress (e.g. Agrobacterium tumefaciens) and abiotic stress (e.g. hypoxia, cycloheximide, 2,4-dichlorophenoxyacetic acid, AgNO(3) and aminoethoxyvinylglycine). {ECO:0000269\|PubMed:18390806}.

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_013629167.1	0.0	PREDICTED: transcriptional corepressor LEUNIG_HOMOLOG-like isoform X2
Swissprot	O48847	0.0	LUH_ARATH; Transcriptional corepressor LEUNIG_HOMOLOG
TrEMBL	A0A0D3B4J8	0.0	A0A0D3B4J8_BRAOL; Uncharacterized protein
STRING	Bo3g026760.1	0.0	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14770.1	3e-40	TESMIN/TSO1-like CXC 2

Publications ? help Back to Top
Haas BJ, et al. Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies. Nucleic Acids Res., 2003. 31(19): p. 5654-66 [PMID:14500829] Hollender CA,Liu Z Bimolecular fluorescence complementation (BiFC) assay for protein-protein interaction in onion cells using the helios gene gun. J Vis Exp, 2010. [PMID:20567209] Bui M,Lim N,Sijacic P,Liu Z LEUNIG_HOMOLOG and LEUNIG regulate seed mucilage extrusion in Arabidopsis. J Integr Plant Biol, 2011. 53(5): p. 399-408 [PMID:21362134] Walker M, et al. The transcriptional regulator LEUNIG_HOMOLOG regulates mucilage release from the Arabidopsis testa. Plant Physiol., 2011. 156(1): p. 46-60 [PMID:21402796] Huang J, et al. The Arabidopsis transcription factor LUH/MUM1 is required for extrusion of seed coat mucilage. Plant Physiol., 2011. 156(2): p. 491-502 [PMID:21518777] Shrestha B,Guragain B,Sridhar VV Involvement of co-repressor LUH and the adapter proteins SLK1 and SLK2 in the regulation of abiotic stress response genes in Arabidopsis. BMC Plant Biol., 2014. 14: p. 54 [PMID:24564815] 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] Ranocha P,Francoz E,Burlat V,Dunand C Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion. Plant Signal Behav, 2014. 9(11): p. e977734 [PMID:25531128] Geng X, et al. LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis. Plant J., 2017. 90(3): p. 491-504 [PMID:28181322]