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

GSBRNA2T00101148001

Common Name

GSBRNA2T00101148001

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_related

Protein Properties

Length: 155aa MW: 17821.1 Da PI: 6.7902

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00101148001	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	31.8	3.3e-10	38	80	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l ++++++ + ++ Ia ++++ Rtl+++k+r+++ GSBRNA2T00101148001 38 VWTKEETDQLFELCERFDLR-FTVIADRFPLSRTLEELKDRYYS 80 6*****************.*******************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	7.9E-26	18	82	IPR032563	DAMP1, SANT/Myb-like domain
SuperFamily	SSF46689	1.79E-7	35	81	IPR009057	Homeodomain-like
SMART	SM00717	3.6E-8	35	84	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.1E-7	38	81	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: 155 aa Download sequence Send to blast
MICSSSIGLE WLMMFHHQSV DVLKYTDDEY ENHLTDPVWT KEETDQLFEL CERFDLRFTV 60 IADRFPLSRT LEELKDRYYS VTPGPAAFHL QYKESEGSSH REGTYAAMPD TPKCVSVSAE 120 RPIKKEQKRK GPGRQSDTPS PAHKRPRKLK ASDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	5e-14	17	86	11	84	DNA methyltransferase 1-associated protein 1
4iej_A	5e-14	17	86	11	84	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.21598	1e-101	vegetative meristem

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. {ECO:0000305\|Ref.5}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00101148001

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	AK353019	4e-84	AK353019.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-19-J15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013614238.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X2
Refseq	XP_013614239.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X2
Refseq	XP_013614240.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X2
Refseq	XP_013614241.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X3
Refseq	XP_013614242.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X3
Refseq	XP_013614243.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X3
Refseq	XP_013614244.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X4
Refseq	XP_013614245.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X4
Refseq	XP_013614247.1	8e-60	PREDICTED: SWR1-complex protein 4-like isoform X4
Swissprot	Q8VZL6	4e-33	SWC4_ARATH; SWR1-complex protein 4
STRING	Bra004471.1-P	2e-37	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47210.1	2e-35	MYB_related family protein

Publications ? help Back to Top
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] Gómez-Zambrano Á, et al. Arabidopsis SWC4 Binds DNA and Recruits the SWR1 Complex to Modulate Histone H2A.Z Deposition at Key Regulatory Genes. Mol Plant, 2018. 11(6): p. 815-832 [PMID:29604400]