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

GSBRNA2T00012860001

Common Name

GSBRNA2T00012860001, LOC106453133

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

MYB

Protein Properties

Length: 848aa MW: 95770.4 Da PI: 6.7691

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00012860001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	43.3	8.3e-14	8	53	2	48
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 g W Ede+l+ av ++G+++W++I++ + ++++kqck rw+ +l GSBRNA2T00012860001 8 GVWKNTEDEILKAAVMKYGKNQWARISSLLV-RKSAKQCKARWYEWL 53 78***************************.**********986 PP
2	Myb_DNA-binding	34.4	5.1e-11	60	103	2	48
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 WT eEde+l+++ k+l++ W+tIa +g Rt+ qc +r+ k+l GSBRNA2T00012860001 60 TEWTREEDEKLLHLAKLLPTQ-WRTIAPIVG--RTPSQCLERYEKLL 103 68***************99.****8..********9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	22.008	2	57	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	6.6E-18	5	56	IPR009057	Homeodomain-like
SMART	SM00717	7.0E-15	6	55	IPR001005	SANT/Myb domain
CDD	cd00167	1.65E-11	10	53	No hit	No description
Pfam	PF13921	4.5E-13	10	70	No hit	No description
SuperFamily	SSF46689	7.91E-21	33	109	IPR009057	Homeodomain-like
CDD	cd11659	5.41E-30	55	106	No hit	No description
Gene3D	G3DSA:1.10.10.60	5.7E-14	57	104	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.675	58	107	IPR017930	Myb domain
SMART	SM00717	2.3E-12	58	105	IPR001005	SANT/Myb domain
Pfam	PF11831	1.9E-54	407	659	IPR021786	Pre-mRNA splicing factor component Cdc5p/Cef1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 848 aa Download sequence Send to blast
MRIMIKGGVW KNTEDEILKA AVMKYGKNQW ARISSLLVRK SAKQCKARWY EWLDPSIKKT 60 EWTREEDEKL LHLAKLLPTQ WRTIAPIVGR TPSQCLERYE KLLDAACTKD ESYEAADDPR 120 KLRPGEIDPN PESKPARPDP VDMDEDEKEM LSEARARLAN TRGKKAKRKA REKQLEEARR 180 LASLQKRREL KAAGIGNSHR KRKRKGIDYN AEIPFEKRAP AGFYDTADED RPADQVKFPT 240 TIEDLEGRRR ADVEAQLRRQ DVARNKIAER RDAPAAILQA NKMNDPEAVR KRSKLMLPPP 300 QISDHELEEI AKMGYASDLL AENEELTEGS AATRALLANY SQTPRQGMTP MRTPQRTPAG 360 KGDAIMMEAE NLARLRDSQT PLLGGDNPEL HPSDFTGVTP RKKEIQTPNP MLTPSMTPSM 420 TPGGAGLTPR LGLTPSRDGS SFAMTPRGTP FRDELHINED MDMHESAKLE GQRREEARRS 480 LRTGLTGLPQ PRNEYQIVAQ PPPEESEEQE EKIEEDMSDK IAREKAEEEA RQQALLRKRS 540 KVLQRDLPRP PAASLELIKN SLLSANGDKS SVVPPTPEEV ADKLVRRELL QLLEHDNAKY 600 PLDGKAEKKK GAKNRANSSG SQVTPIEDFE ENDLEEADKM IKEEGKFLCK AMGNENKTLE 660 DFVKAHDDCV KDLMYFPTRN AYGPSSVAVK AEKVAALQVE MENARKKMEE DEKKAEHMKA 720 KYKTYTKGHE KRAETVWSQI EASLKQIEIG GTEVECFKAL KRQEEMAASF RKKNLEEEVV 780 KQKETERKLQ ASYGELLSTL EKAEEIMVGF RVQALKQADV EDSHNLKEAK LATGEEEDVA 840 ISTEASS*

Sequence ? help Back to Top

Protein Sequence Length: 848 aa Download sequence Send to blast

MRIMIKGGVW KNTEDEILKA AVMKYGKNQW ARISSLLVRK SAKQCKARWY EWLDPSIKKT  60
EWTREEDEKL LHLAKLLPTQ WRTIAPIVGR TPSQCLERYE KLLDAACTKD ESYEAADDPR  120
KLRPGEIDPN PESKPARPDP VDMDEDEKEM LSEARARLAN TRGKKAKRKA REKQLEEARR  180
LASLQKRREL KAAGIGNSHR KRKRKGIDYN AEIPFEKRAP AGFYDTADED RPADQVKFPT  240
TIEDLEGRRR ADVEAQLRRQ DVARNKIAER RDAPAAILQA NKMNDPEAVR KRSKLMLPPP  300
QISDHELEEI AKMGYASDLL AENEELTEGS AATRALLANY SQTPRQGMTP MRTPQRTPAG  360
KGDAIMMEAE NLARLRDSQT PLLGGDNPEL HPSDFTGVTP RKKEIQTPNP MLTPSMTPSM  420
TPGGAGLTPR LGLTPSRDGS SFAMTPRGTP FRDELHINED MDMHESAKLE GQRREEARRS  480
LRTGLTGLPQ PRNEYQIVAQ PPPEESEEQE EKIEEDMSDK IAREKAEEEA RQQALLRKRS  540
KVLQRDLPRP PAASLELIKN SLLSANGDKS SVVPPTPEEV ADKLVRRELL QLLEHDNAKY  600
PLDGKAEKKK GAKNRANSSG SQVTPIEDFE ENDLEEADKM IKEEGKFLCK AMGNENKTLE  660
DFVKAHDDCV KDLMYFPTRN AYGPSSVAVK AEKVAALQVE MENARKKMEE DEKKAEHMKA  720
KYKTYTKGHE KRAETVWSQI EASLKQIEIG GTEVECFKAL KRQEEMAASF RKKNLEEEVV  780
KQKETERKLQ ASYGELLSTL EKAEEIMVGF RVQALKQADV EDSHNLKEAK LATGEEEDVA  840
ISTEASS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5mqf_L	0.0	2	797	3	792	Cell division cycle 5-like protein
5xjc_L	0.0	2	797	3	792	Cell division cycle 5-like protein
5yzg_L	0.0	2	797	3	792	Cell division cycle 5-like protein
5z56_L	0.0	2	797	3	792	Cell division cycle 5-like protein
5z57_L	0.0	2	797	3	792	Cell division cycle 5-like protein
5z58_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6ff4_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6ff7_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6icz_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6id0_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6id1_L	0.0	2	797	3	792	Cell division cycle 5-like protein
6qdv_O	0.0	2	797	3	792	Cell division cycle 5-like protein
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	185	204	KRRELKAAGIGNSHRKRKRK
2	199	204	RKRKRK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.1834	1e-143	microspore\| root\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed extensively in shoot and root meristems. {ECO:0000269\|PubMed:8917598}.

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the MAC complex that probably regulates defense responses through transcriptional control and thereby is essential for plant innate immunity. Possesses a sequence specific DNA sequence 'CTCAGCG' binding activity. Involved in mRNA splicing and cell cycle control. May also play a role in the response to DNA damage. {ECO:0000250\|UniProtKB:Q99459, ECO:0000269\|PubMed:17298883, ECO:0000269\|PubMed:17575050, ECO:0000269\|PubMed:8917598}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00012860001

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	AC189331	0.0	AC189331.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB037O12, complete sequence.
GenBank	AC189519	0.0	AC189519.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB091G04, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013750840.1	0.0	cell division cycle 5-like protein
Swissprot	P92948	0.0	CDC5L_ARATH; Cell division cycle 5-like protein
TrEMBL	A0A078G7S4	0.0	A0A078G7S4_BRANA; BnaC08g13850D protein
TrEMBL	A0A3P6FRW2	0.0	A0A3P6FRW2_BRAOL; Uncharacterized protein
STRING	Bo8g058860.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6453	27	42

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G09770.1	0.0	cell division cycle 5

Link Out ? help Back to Top
Entrez Gene	106453133

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] 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] Li S, et al. MAC3A and MAC3B, Two Core Subunits of the MOS4-Associated Complex, Positively Influence miRNA Biogenesis. Plant Cell, 2018. 30(2): p. 481-494 [PMID:29437988]