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

XP_013593773.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 254aa MW: 28960.9 Da PI: 8.7209

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013593773.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	48.9	1.5e-15	35	82	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg+W+ eE e+l+ + + G ++W++I++ g+ R++k+c++rw +yl XP_013593773.1 35 RGPWSDEESEILKAFILKNGHRNWRSIPKLAGLMRCGKSCRLRWVNYL 82 89********************************************97 PP
2	Myb_DNA-binding	48.8	1.6e-15	88	132	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T+eE++ ++++++ lG++ W++Ia+++g Rt++++k+ w+++l XP_013593773.1 88 RGNFTKEEEDTIIHLHQTLGNK-WAKIASHLG--RTDNEIKNVWNTHL 132 89******************.****8..*********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	16.054	30	82	IPR017930	Myb domain
SMART	SM00717	3.5E-11	34	84	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.1E-25	34	128	IPR009057	Homeodomain-like
Pfam	PF00249	1.2E-13	35	82	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.8E-21	36	89	IPR009057	Homeodomain-like
CDD	cd00167	1.57E-8	37	82	No hit	No description
PROSITE profile	PS51294	23.48	83	136	IPR017930	Myb domain
SMART	SM00717	4.3E-14	87	134	IPR001005	SANT/Myb domain
Pfam	PF00249	2.0E-14	88	132	IPR001005	SANT/Myb domain
CDD	cd00167	2.19E-8	90	132	No hit	No description
Gene3D	G3DSA:1.10.10.60	6.4E-25	90	137	IPR009057	Homeodomain-like

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: 254 aa Download sequence Send to blast
MNISYQILQK LKSVFVSVMG KGKAPCCDHS QILKRGPWSD EESEILKAFI LKNGHRNWRS 60 IPKLAGLMRC GKSCRLRWVN YLRPGLKRGN FTKEEEDTII HLHQTLGNKW AKIASHLGRT 120 DNEIKNVWNT HLKKRLIKRN SSASSDVTNQ APSVSRSSSS SSSSVSNNVI KSEKLNQEEE 180 LEQILVEDMA SGFEVNAPQS LESLFEDRKV PPPITKPDSL EIRGKSDDEL CRQMVEPGLD 240 DYNEWLIYFD NQTF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-21	33	136	5	108	B-MYB
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in cauline leaves and siliques. {ECO:0000269\|PubMed:9839469}.

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	XP_013593773.1

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_013593773.1	0.0	PREDICTED: myb-related protein Myb4-like
Swissprot	Q9LTV4	1e-116	MYB10_ARATH; Transcription factor MYB10
TrEMBL	A0A0D3AE58	1e-175	A0A0D3AE58_BRAOL; Uncharacterized protein
STRING	Bo1g138940.1	1e-175	(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	1e-116	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]