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

GSBRNA2T00132982001

Common Name

GSBRNA2T00132982001, LOC106436389

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: 434aa MW: 48947.8 Da PI: 9.7447

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00132982001	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	29.5	1.7e-09	132	174	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l ++++++ + ++ Ia ++++ Rtl+++k+r+++ GSBRNA2T00132982001 132 VWTKEETDQLFELCERFDLR-FTVIADRFPLSRTLEELKDRYYS 174 6*****************.*******************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	2.5E-30	105	179	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	2.7E-9	129	178	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	4.49E-7	129	182	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	4.0E-7	132	177	IPR009057	Homeodomain-like
CDD	cd11658	4.42E-18	133	175	No hit	No description
Pfam	PF05499	2.3E-6	310	373	IPR008468	DNA methyltransferase 1-associated 1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 434 aa Download sequence Send to blast
MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVTQ 60 LKRPPPPDEK VAWQWLPVKS SARKDDLQLY HWVRVVNDIP PSGDYSFAKY NKSVDVLKYT 120 DDEYENHLTD PVWTKEETDQ LFELCERFDL RFTVIADRFP LSRTLEELKD RYYSVTRALL 180 RARAQSPAEL ANHPLIKEPY DMTRDRERKR ALSMVLSQSR HQEKKDAEIL AEAKRITEMR 240 LAARRAAEPD VPANENIGSV SPSSNSQLPA TAVAPSTLTM ADYASTLASL RMLHVYLRTY 300 GLEQMVQAAS SAVGLRTIKR VEQTLQDLGV NLKPKVPTKT VCDEHLELRK EILTLLNLQK 360 QLQYKESEGS SHREGTYGAM PDTPKDRVFA SEPFGFGAER PIKKEPKRKG PGRQSDTPSP 420 AHKRPRKLKA SDL*

Sequence ? help Back to Top

Protein Sequence Length: 434 aa Download sequence Send to blast

MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVTQ  60
LKRPPPPDEK VAWQWLPVKS SARKDDLQLY HWVRVVNDIP PSGDYSFAKY NKSVDVLKYT  120
DDEYENHLTD PVWTKEETDQ LFELCERFDL RFTVIADRFP LSRTLEELKD RYYSVTRALL  180
RARAQSPAEL ANHPLIKEPY DMTRDRERKR ALSMVLSQSR HQEKKDAEIL AEAKRITEMR  240
LAARRAAEPD VPANENIGSV SPSSNSQLPA TAVAPSTLTM ADYASTLASL RMLHVYLRTY  300
GLEQMVQAAS SAVGLRTIKR VEQTLQDLGV NLKPKVPTKT VCDEHLELRK EILTLLNLQK  360
QLQYKESEGS SHREGTYGAM PDTPKDRVFA SEPFGFGAER PIKKEPKRKG PGRQSDTPSP  420
AHKRPRKLKA SDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	6e-19	104	184	4	88	DNA methyltransferase 1-associated protein 1
4iej_A	6e-19	104	184	4	88	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.21598	0.0	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	GSBRNA2T00132982001

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	0.0	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_009142553.1	0.0	PREDICTED: SWR1-complex protein 4
Refseq	XP_013732808.1	0.0	SWR1-complex protein 4
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A397ZCK1	0.0	A0A397ZCK1_BRACM; Uncharacterized protein
STRING	Bo00954s060.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8543	24	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47210.1	0.0	MYB_related family protein

Link Out ? help Back to Top
Entrez Gene	106436389

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]