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

Rsa1.0_00090.1_g00014.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 233aa MW: 25290.5 Da PI: 9.4038

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00090.1_g00014.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	34.4	5e-11	96	140	3	47
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 +WT+ E+ ++ + + lG+g+W+ I+r + ++++ q+ s+ qky Rsa1.0_00090.1_g00014.1 96 PWTEKEHRMFLTGLENLGKGDWRGISRNFVVTKSPTQVASHAQKY 140 7*******************************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	17.049	88	145	IPR017930	Myb domain
SuperFamily	SSF46689	1.79E-15	91	145	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	8.0E-18	92	144	IPR006447	Myb domain, plants
SMART	SM00717	9.8E-8	93	143	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.7E-8	94	139	IPR009057	Homeodomain-like
Pfam	PF00249	5.1E-9	96	140	IPR001005	SANT/Myb domain
CDD	cd00167	1.49E-7	96	141	No hit	No description

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: 233 aa Download sequence Send to blast
MGRKCSHCGS VGHNSRTCSS NKTRVIKLFG VHVDTTGSSP PPGPHSPPPL SIFAATMKKS 60 FSMDCLPACS SPSSSLAGYV SDGLTQKTPD RKKGIPWTEK EHRMFLTGLE NLGKGDWRGI 120 SRNFVVTKSP TQVASHAQKY FIRQATTLHH KRRRTSLFDM ASNVEENSFI PCNDDDQIGS 180 TTEVVWKQGL TDPCIGHPDP EISGSGNTGG LDLDLRLASH QSSKSNIRPI SVT

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription repressor that binds to 5'-TATCCA-3' elements in gene promoters. Contributes to the sugar-repressed transcription of promoters containing SRS or 5'-TATCCA-3' elements. Transcription repressor involved in a cold stress response pathway that confers cold tolerance. Suppresses the DREB1-dependent signaling pathway under prolonged cold stress. DREB1 responds quickly and transiently while MYBS3 responds slowly to cold stress. They may act sequentially and complementarily for adaptation to short- and long-term cold stress (PubMed:20130099). {ECO:0000269\|PubMed:12172034, ECO:0000269\|PubMed:20130099}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00565	DAP	Transfer from AT5G56840	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00090.1_g00014.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by sucrose and gibberellic acid (GA) (PubMed:12172034). Induced by cold stress in roots and shoots. Induced by salt stress in shoots. Down-regulated by abscisic aci (ABA) in shoots (PubMed:20130099). {ECO:0000269\|PubMed:12172034, ECO:0000269\|PubMed:20130099}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018473565.1	1e-158	PREDICTED: uncharacterized protein LOC108844766
Swissprot	Q7XC57	1e-43	MYBS3_ORYSJ; Transcription factor MYBS3
TrEMBL	A0A078JJB1	1e-138	A0A078JJB1_BRANA; BnaCnng47140D protein
TrEMBL	A0A3P6AQU3	1e-138	A0A3P6AQU3_BRAOL; Uncharacterized protein
STRING	Bo3g019630.1	1e-128	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5496	27	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G56840.1	1e-103	MYB_related family protein

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992] Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Su CF, et al. A novel MYBS3-dependent pathway confers cold tolerance in rice. Plant Physiol., 2010. 153(1): p. 145-58 [PMID:20130099]