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

Pavir.3KG320900.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 441aa MW: 49546.2 Da PI: 9.9753

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.3KG320900.2.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	22	3.7e-07	132	174	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 +W+ eE ++l ++++++ + + Ia ++++ R+ +++ksr+++ Pavir.3KG320900.2.p 132 AWSREETDQLFELCERFDLR-FIVIADRFPTSRSVEDLKSRYYS 174 7*****************.*******************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	4.9E-31	105	179	IPR032563	DAMP1, SANT/Myb-like domain
SuperFamily	SSF46689	5.46E-6	129	183	IPR009057	Homeodomain-like
SMART	SM00717	3.6E-7	129	178	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	9.4E-5	132	177	IPR009057	Homeodomain-like
CDD	cd11658	1.82E-18	133	175	No hit	No description

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: 441 aa Download sequence Send to blast
MDAKDILGLP KTPFSSSQEK KSRPPKEPQR KPDGVSREVY ALTGGVGMAP LMPTIEASHL 60 KRRPAAEKEK VAWQWLPFTS SARTDNLQLY HWVRVVNGVP PTGDYQFAKY NKKVDILKYT 120 DEEYEKYLID PAWSREETDQ LFELCERFDL RFIVIADRFP TSRSVEDLKS RYYSVSRTLL 180 IHRARSFDDV SGNPLVKDSY DAAHDTERKR ALSALLSQTK QQERKDAETL AEAKRIMESR 240 AASKTVDEAG MPSSSYNAMV PVDGVSPLSS THPPLTHPNT AANSSIPNSL RALRVYLRTH 300 ALDQMVQAAS ASAGLRVIKR VDQTLQDLGV NLKPKAPTKA VCVEHLELQY EILTLLNLQK 360 QLQNKEAEVL ANRESSFTEA PSTPKRSNRD IDRPFVPDTV GFTGERAGKR DHKRKNTGRF 420 IDPPPSPPQS KRPRKLKGSD *

Sequence ? help Back to Top

Protein Sequence Length: 441 aa Download sequence Send to blast

MDAKDILGLP KTPFSSSQEK KSRPPKEPQR KPDGVSREVY ALTGGVGMAP LMPTIEASHL  60
KRRPAAEKEK VAWQWLPFTS SARTDNLQLY HWVRVVNGVP PTGDYQFAKY NKKVDILKYT  120
DEEYEKYLID PAWSREETDQ LFELCERFDL RFIVIADRFP TSRSVEDLKS RYYSVSRTLL  180
IHRARSFDDV SGNPLVKDSY DAAHDTERKR ALSALLSQTK QQERKDAETL AEAKRIMESR  240
AASKTVDEAG MPSSSYNAMV PVDGVSPLSS THPPLTHPNT AANSSIPNSL RALRVYLRTH  300
ALDQMVQAAS ASAGLRVIKR VDQTLQDLGV NLKPKAPTKA VCVEHLELQY EILTLLNLQK  360
QLQNKEAEVL ANRESSFTEA PSTPKRSNRD IDRPFVPDTV GFTGERAGKR DHKRKNTGRF  420
IDPPPSPPQS KRPRKLKGSD *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	6e-20	104	179	4	83	DNA methyltransferase 1-associated protein 1
4iej_A	6e-20	104	179	4	83	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.14300	9e-57	callus\| leaf

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	Pavir.3KG320900.2.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_025805626.1	0.0	SWR1-complex protein 4
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A2S3HA29	0.0	A0A2S3HA29_9POAL; Uncharacterized protein
TrEMBL	A0A2T7EB13	0.0	A0A2T7EB13_9POAL; Uncharacterized protein
STRING	Pavir.Ca01768.1.p	0.0	(Panicum virgatum)

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	Pavir.3KG320900.2.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]