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

GSBRNA2T00056321001

Common Name

GSBRNA2T00056321001

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

MIKC_MADS

Protein Properties

Length: 793aa MW: 88908.5 Da PI: 9.5777

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00056321001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	82.4	2.9e-26	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+i+n + rqvtfskRr gi+KKA+ELS+LCda+va+iifs tgkl+e+ss GSBRNA2T00056321001 9 KKIDNLTARQVTFSKRRRGIIKKANELSILCDADVALIIFSATGKLFEFSS 59 68***********************************************96 PP
2	K-box	58.6	2.7e-20	91	171	18	98
K-box 18 qqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 + +l++L ke+e +++R++ G dLe L+l+eLq+Le+ Le++l+++ +kK e +++qi+ l k+ el +en++Lr++l GSBRNA2T00056321001 91 NCNLSRLSKEVEDKTKQLRQMRGGDLEGLNLEELQRLEKSLESGLSRVSEKKGECVMSQISSLEKRGSELVDENRRLREQL 171 567899************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	29.534	1	61	IPR002100	Transcription factor, MADS-box
SMART	SM00432	5.2E-37	1	60	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.12E-36	2	69	No hit	No description
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	7.6E-25	3	23	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	4.06E-29	3	71	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.7E-23	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	7.6E-25	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	7.6E-25	38	59	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	13.607	87	177	IPR002487	Transcription factor, K-box
Pfam	PF01486	1.1E-16	92	171	IPR002487	Transcription factor, K-box
CDD	cd11299	2.50E-143	377	734	No hit	No description
Pfam	PF10250	3.2E-62	382	729	IPR019378	GDP-fucose protein O-fucosyltransferase

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 793 aa Download sequence Send to blast
MAREKIRIKK IDNLTARQVT FSKRRRGIIK KANELSILCD ADVALIIFSA TGKLFEFSSS 60 SMRDILGRYN LHASNINKMM GPPSPYHQLD NCNLSRLSKE VEDKTKQLRQ MRGGDLEGLN 120 LEELQRLEKS LESGLSRVSE KKGECVMSQI SSLEKRGSEL VDENRRLREQ LVTLEMAKTM 180 ALKEAVETES ATTNVSSYDS AAPIEDDFSD TSLKLGKRLK TPEIEHTCVC VYLHLRFAYK 240 YQLLCLHTLR FGSIFPPILS PEFRIKLLDV IVESILQMKQ LQSLNHSQRI ALAGVLALLF 300 PIFSPNLFRP LGRASPSLFS EWNAPRPRHL RLLEGALHRQ ISIRQQVELW SPLPDQSWKP 360 CTQSFTGSPL PEKSQGFLQV FLDGGLNQQR MGICDAVAVA KILNVTLVIP RLEVNPVWQD 420 SSSFADIFDV DHFITVLKDE VRIVRELPTQ YAWSTRDYYA TGIRATRIKT APTHASAEWY 480 VENVLPVIQS YGIAAVAPFS HRLAFDNVPE SIQRLRCKVN FEALNFVPRI RELGDAVVHR 540 LRNPPSSSIT SGATDPTERV NTIAKSGAGK FVVLHLRFDK DMAAHSGCDF GGGKAEKLAL 600 AKYRQVIWQG RVLNSQFTDE ELRNKGRCPL TPEEIGLLLS ALGFTNNTRL YLASHQVYGG 660 EARISTLRKL FPVLENKKSL ASAEELAEVE GKASLMAAVD YYVSMKSDIF ISASPGNMHN 720 ALLAHRAYLN LKTINPNMIL LGQVLVNKSL GWSEFEGAVV NGHKNRQGQL RLRKQKQSIY 780 TYPAPDCMCK AA*

Sequence ? help Back to Top

Protein Sequence Length: 793 aa Download sequence Send to blast

MAREKIRIKK IDNLTARQVT FSKRRRGIIK KANELSILCD ADVALIIFSA TGKLFEFSSS  60
SMRDILGRYN LHASNINKMM GPPSPYHQLD NCNLSRLSKE VEDKTKQLRQ MRGGDLEGLN  120
LEELQRLEKS LESGLSRVSE KKGECVMSQI SSLEKRGSEL VDENRRLREQ LVTLEMAKTM  180
ALKEAVETES ATTNVSSYDS AAPIEDDFSD TSLKLGKRLK TPEIEHTCVC VYLHLRFAYK  240
YQLLCLHTLR FGSIFPPILS PEFRIKLLDV IVESILQMKQ LQSLNHSQRI ALAGVLALLF  300
PIFSPNLFRP LGRASPSLFS EWNAPRPRHL RLLEGALHRQ ISIRQQVELW SPLPDQSWKP  360
CTQSFTGSPL PEKSQGFLQV FLDGGLNQQR MGICDAVAVA KILNVTLVIP RLEVNPVWQD  420
SSSFADIFDV DHFITVLKDE VRIVRELPTQ YAWSTRDYYA TGIRATRIKT APTHASAEWY  480
VENVLPVIQS YGIAAVAPFS HRLAFDNVPE SIQRLRCKVN FEALNFVPRI RELGDAVVHR  540
LRNPPSSSIT SGATDPTERV NTIAKSGAGK FVVLHLRFDK DMAAHSGCDF GGGKAEKLAL  600
AKYRQVIWQG RVLNSQFTDE ELRNKGRCPL TPEEIGLLLS ALGFTNNTRL YLASHQVYGG  660
EARISTLRKL FPVLENKKSL ASAEELAEVE GKASLMAAVD YYVSMKSDIF ISASPGNMHN  720
ALLAHRAYLN LKTINPNMIL LGQVLVNKSL GWSEFEGAVV NGHKNRQGQL RLRKQKQSIY  780
TYPAPDCMCK AA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	6e-17	1	69	1	69	MEF2C
5f28_B	6e-17	1	69	1	69	MEF2C
5f28_C	6e-17	1	69	1	69	MEF2C
5f28_D	6e-17	1	69	1	69	MEF2C
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00056321001

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	JQ906708	0.0	JQ906708.1 Brassica napus clone AGL24-2 MADS-box protein AGL24 (AGL24) mRNA, complete cds.
GenBank	JQ906713	0.0	JQ906713.1 Brassica juncea clone AGL24-2 MADS-box protein AGL24 (AGL24) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009138156.1	0.0	PREDICTED: uncharacterized protein At1g04910
Swissprot	Q7Y030	0.0	OFT31_ARATH; O-fucosyltransferase 31
TrEMBL	A0A078H9W3	0.0	A0A078H9W3_BRANA; BnaA01g13920D protein
STRING	Bra013812.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2423	2	2

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G24540.1	1e-112	AGAMOUS-like 24

Publications ? help Back to Top
Hansen SF,Harholt J,Oikawa A,Scheller HV Plant Glycosyltransferases Beyond CAZy: A Perspective on DUF Families. Front Plant Sci, 2012. 3: p. 59 [PMID:22629278] Neumetzler L, et al. The FRIABLE1 gene product affects cell adhesion in Arabidopsis. PLoS ONE, 2012. 7(8): p. e42914 [PMID:22916179] Wang Y,Mortimer JC,Davis J,Dupree P,Keegstra K Identification of an additional protein involved in mannan biosynthesis. Plant J., 2013. 73(1): p. 105-17 [PMID:22966747] Voxeur A,André A,Breton C,Lerouge P Identification of putative rhamnogalacturonan-II specific glycosyltransferases in Arabidopsis using a combination of bioinformatics approaches. PLoS ONE, 2012. 7(12): p. e51129 [PMID:23272088] 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]