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

GSBRNA2T00038173001

Common Name

GSBRNA2T00038173001

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: 445aa MW: 49907.9 Da PI: 9.7486

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00038173001	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	1.8e-09	133	175	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l ++++++ + ++ Ia ++++ Rtl+++k+r+++ GSBRNA2T00038173001 133 VWTKEETDQLFELCERFDLR-FTVIADRFPLSRTLEELKDRYYS 175 6*****************.*******************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	1.7E-29	106	180	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	2.7E-9	130	179	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	8.16E-7	131	182	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	5.1E-7	134	178	IPR009057	Homeodomain-like
CDD	cd11658	4.81E-18	134	176	No hit	No description
Pfam	PF05499	2.5E-7	322	390	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: 445 aa Download sequence Send to blast
MGGTDAKDIL GLRKTPLSLS HEKKARPQKE SHRKPDGISR EVYALTGGVA PPLMPSIDVT 60 HLKRPPPPHE KVAWQWLPIN SSARKDDLQL YHWVRVVNGV PPTGDYSFAK YNKSVDILKY 120 TDDDYENLLT DPVWTKEETD QLFELCERFD LRFTVIADRF PLSRTLEELK DRYYSVTRAL 180 LRARAQSPAD LANHPLMKEP YDMTRDRERK RALSMVLSQS RHQEKKDAEI LAEAKRITEI 240 RLAARRAADL DVSGNENIGL DKADGGPGCS VSPSSNSQLP ATAVAPSTLT MADYASTLAS 300 LRMLHVYLRT YGLEQMVQAA SSAVGLRTIK RVEQTLQDLG VNLKPKVPTK TVCDEHLELR 360 KEILTLLNLQ KQLQYKESEG SSHREGAYAA MPDTPKDRVF ASEPFSFGAE RPIKKEPKRK 420 GPGRQADTPS PAHKRPRKLK ASDL*

Sequence ? help Back to Top

Protein Sequence Length: 445 aa Download sequence Send to blast

MGGTDAKDIL GLRKTPLSLS HEKKARPQKE SHRKPDGISR EVYALTGGVA PPLMPSIDVT  60
HLKRPPPPHE KVAWQWLPIN SSARKDDLQL YHWVRVVNGV PPTGDYSFAK YNKSVDILKY  120
TDDDYENLLT DPVWTKEETD QLFELCERFD LRFTVIADRF PLSRTLEELK DRYYSVTRAL  180
LRARAQSPAD LANHPLMKEP YDMTRDRERK RALSMVLSQS RHQEKKDAEI LAEAKRITEI  240
RLAARRAADL DVSGNENIGL DKADGGPGCS VSPSSNSQLP ATAVAPSTLT MADYASTLAS  300
LRMLHVYLRT YGLEQMVQAA SSAVGLRTIK RVEQTLQDLG VNLKPKVPTK TVCDEHLELR  360
KEILTLLNLQ KQLQYKESEG SSHREGAYAA MPDTPKDRVF ASEPFSFGAE RPIKKEPKRK  420
GPGRQADTPS PAHKRPRKLK ASDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	5e-18	105	185	4	88	DNA methyltransferase 1-associated protein 1
4iej_A	5e-18	105	185	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	GSBRNA2T00038173001

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_013748540.1	0.0	SWR1-complex protein 4-like
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A078GQQ4	0.0	A0A078GQQ4_BRANA; BnaC04g51430D 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

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]