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_01277.1_g00008.1

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

Protein Properties

Length: 218aa MW: 24559.2 Da PI: 5.375

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01277.1_g00008.1	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	23.6	1.2e-07	17	50	1	34
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkg 34 rg+W+ eE e+l+ + + G ++W++ +r g++ Rsa1.0_01277.1_g00008.1 17 RGAWSDEESEILKAFILKNGHRNWRSLPRLAGLK 50 89****************************9944 PP
2	Myb_DNA-binding	44.5	3.5e-14	51	95	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T++E++ ++++ + lG++ W++Ia+++g Rt++++k+ w+++l Rsa1.0_01277.1_g00008.1 51 RGNFTKDEEDTIIHLTQTLGNK-WSKIASHLG--RTDNEIKNVWNTHL 95 89******************.****8..*********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	6.005	12	45	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	5.5E-7	15	47	IPR009057	Homeodomain-like
SuperFamily	SSF46689	4.28E-14	16	91	IPR009057	Homeodomain-like
PROSITE profile	PS51294	19.403	46	99	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	5.9E-20	48	99	IPR009057	Homeodomain-like
SMART	SM00717	2.1E-12	50	97	IPR001005	SANT/Myb domain
Pfam	PF00249	9.7E-13	51	95	IPR001005	SANT/Myb domain
CDD	cd00167	3.08E-7	53	95	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: 218 aa Download sequence Send to blast
MGKGKAPCYD HSQVLKRGAW SDEESEILKA FILKNGHRNW RSLPRLAGLK RGNFTKDEED 60 TIIHLTQTLG NKWSKIASHL GRTDNEIKNV WNTHLKKRLM KSNSSASSDV TSQASSVSHS 120 SSPASSSASN DVIKSEKINE EEDLEEILVE DMACGFEVNA PQSLESLFED RKIPPPISKP 180 DSVEIHEKSD HGELCSRMVE PGLDDYNEWL NYFDNQNF

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression. Necessary for plant survival in alkaline soil where iron availability is greatly restricted. Triggers tolerance to nickel (Ni) and zinc (Zn) ions. {ECO:0000269\|PubMed:24278034}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00352	DAP	Transfer from AT3G12820	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01277.1_g00008.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Accumulates strongly in the root stele and in the outer layers of the lateral roots when exposed to iron (Fe)-deficient conditions (PubMed:24278034). Slightly induced by ethylene and by darkness conditions (PubMed:9839469). Accumulates upon potassium (K) depletion (PubMed:15489280). Induced by zinc (Zn) and cadmium (Cd) ions (PubMed:18088336). {ECO:0000269\|PubMed:15489280, ECO:0000269\|PubMed:18088336, ECO:0000269\|PubMed:24278034, ECO:0000269\|PubMed:9839469}.

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_018435359.1	1e-125	PREDICTED: myb-related protein Myb4-like
Swissprot	Q9LTV4	1e-90	MYB10_ARATH; Transcription factor MYB10
TrEMBL	A0A3N6QUT4	1e-123	A0A3N6QUT4_BRACR; Uncharacterized protein
STRING	Bo1g138940.1	1e-121	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14096	16	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12820.1	2e-78	myb domain protein 10

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]