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

Seita.3G163600.1.p

Common Name

SETIT_021925mg

Organism

Setaria italica

Taxonomic ID

4555

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

MYB_related

Protein Properties

Length: 478aa MW: 53815.2 Da PI: 9.7822

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Seita.3G163600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	23.5	1.3e-07	169	211	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 +W+ eE ++l ++++++ + + Ia +++++R+ +++ksr+++ Seita.3G163600.1.p 169 AWSREETDQLFELCERFDLR-FIVIADRFPTTRSVEDLKSRYYS 211 7*****************.*******************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	7.6E-31	142	216	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	3.0E-7	166	215	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	4.08E-6	166	220	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.9E-5	169	214	IPR009057	Homeodomain-like
CDD	cd11658	1.49E-17	170	212	No hit	No description
Pfam	PF05499	7.4E-7	348	411	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: 478 aa Download sequence Send to blast
MDAKDILGLP KTPFSSSLEK KSRPPKEPQR KPDGVSREVY ALTGGVGMAP LMPTIEASHL 60 KRRPAAEKEK LNFLMCIASN EYYLRVRKRE STVCHVVLCC ELNILAHVAW QWLPFTSSAR 120 SDNLQLYHWV RVVNGVPPTG DYQFAKYNKK VDVLKYTDEE YEKYLIDPAW SREETDQLFE 180 LCERFDLRFI VIADRFPTTR SVEDLKSRYY SVSRSLLIHR SRSFDDVSGN PLVKDSYDAA 240 HETERKRALS ALLSQTKQQE RKDAETLAEA KRIMESRAAS KNVDEAGMPS SSDNAMVPVD 300 GVSPLSSTHP PLTHPNTAAN SSIPNSLRTL RVYLRTHALD QMVQAASASA GLRVIKRVDQ 360 TLQDLGVNLK PKVPTKAVCV EHLELRNEIL TLLNLQKQLQ NKEAEVSANR ESSFTEAPST 420 PKRSNRDIDR TFIPDTVGFS GERAGKRDHK RKTTGRFIDA PPSPTQSKRP RKLKGSD*

Sequence ? help Back to Top

Protein Sequence Length: 478 aa Download sequence Send to blast

MDAKDILGLP KTPFSSSLEK KSRPPKEPQR KPDGVSREVY ALTGGVGMAP LMPTIEASHL  60
KRRPAAEKEK LNFLMCIASN EYYLRVRKRE STVCHVVLCC ELNILAHVAW QWLPFTSSAR  120
SDNLQLYHWV RVVNGVPPTG DYQFAKYNKK VDVLKYTDEE YEKYLIDPAW SREETDQLFE  180
LCERFDLRFI VIADRFPTTR SVEDLKSRYY SVSRSLLIHR SRSFDDVSGN PLVKDSYDAA  240
HETERKRALS ALLSQTKQQE RKDAETLAEA KRIMESRAAS KNVDEAGMPS SSDNAMVPVD  300
GVSPLSSTHP PLTHPNTAAN SSIPNSLRTL RVYLRTHALD QMVQAASASA GLRVIKRVDQ  360
TLQDLGVNLK PKVPTKAVCV EHLELRNEIL TLLNLQKQLQ NKEAEVSANR ESSFTEAPST  420
PKRSNRDIDR TFIPDTVGFS GERAGKRDHK RKTTGRFIDA PPSPTQSKRP RKLKGSD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	6e-20	141	216	4	83	DNA methyltransferase 1-associated protein 1
4iej_A	6e-20	141	216	4	83	DNA methyltransferase 1-associated protein 1
Search in ModeBase

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	Seita.3G163600.1.p

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	EU968439	0.0	EU968439.1 Zea mays clone 320860 DNA methyltransferase 1-associated protein 1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012700354.1	0.0	SWR1-complex protein 4
Swissprot	Q8VZL6	1e-179	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	K3Z5V7	0.0	K3Z5V7_SETIT; Uncharacterized protein
STRING	Si021927m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP6153	12	16

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47210.1	1e-173	MYB_related family protein

Link Out ? help Back to Top
Phytozome	Seita.3G163600.1.p

Publications ? help Back to Top
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]