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

Lsa003257

Organism

Lactuca sativa

Taxonomic ID

4236

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca

Family

MYB_related

Protein Properties

Length: 448aa MW: 49948.8 Da PI: 9.8377

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Lsa#S58687788	PU_ref	Unigene	View CDS
PUT-187a-Lactuca_sativa-32178	PU_unref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	24.7	5.3e-08	129	174	2	46
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT..TTS-HHHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmg..kgRtlkqcksrwqk 46 + WT+eE ++l d+++++ + ++ Ia ++ Rt +++k+r+++ Lsa003257 129 LTWTKEETDQLFDLCERFDLR-FSVIADRFSssSSRTMEELKNRYYS 174 58*****************.*********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	1.1E-31	103	179	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	1.0E-8	127	178	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.2E-6	129	177	IPR009057	Homeodomain-like
SuperFamily	SSF46689	6.77E-6	130	181	IPR009057	Homeodomain-like
CDD	cd11658	1.26E-18	131	175	No hit	No description
Pfam	PF05499	5.5E-7	324	379	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: 448 aa Download sequence Send to blast
MDAKDILGIP KSSLPIPQEK KSRPQKDSQR KPDGISREVY ALTGGVAPLM PSIDANQLKK 60 RHQPENEKIT WEWLAFTNSA RKDNLQLYHW VRVVNGTPPT GDYSFAKYNK SVDVIKYTDE 120 EYEKHLTDLT WTKEETDQLF DLCERFDLRF SVIADRFSSS SSRTMEELKN RYYSVSRTIL 180 IARAPTPADV SSHPLVKEPY NISQEIERKR ALSMVLSQTK HQERKDAEVL SEAKKITESR 240 MAAKAAQDAE LPVTSNISPE GVEKTSAPAD TASPSSIQVA AGGGGGAPLM SMADNAAAAA 300 ASLRMLRVYL RTYALDQMVQ AASSSAGLRT IKRVEQFLQE LKVNLKPKVP TKAVCAEHLE 360 LRKEILTLLN LQKLLQNKEE GSYNETPDTP KRVMDLDRTF IPDPVVSFGE RVVKRDQKRK 420 GPGAGPGREA PSSPAQSKRP RKLKATDS

Sequence ? help Back to Top

Protein Sequence Length: 448 aa Download sequence Send to blast

MDAKDILGIP KSSLPIPQEK KSRPQKDSQR KPDGISREVY ALTGGVAPLM PSIDANQLKK  60
RHQPENEKIT WEWLAFTNSA RKDNLQLYHW VRVVNGTPPT GDYSFAKYNK SVDVIKYTDE  120
EYEKHLTDLT WTKEETDQLF DLCERFDLRF SVIADRFSSS SSRTMEELKN RYYSVSRTIL  180
IARAPTPADV SSHPLVKEPY NISQEIERKR ALSMVLSQTK HQERKDAEVL SEAKKITESR  240
MAAKAAQDAE LPVTSNISPE GVEKTSAPAD TASPSSIQVA AGGGGGAPLM SMADNAAAAA  300
ASLRMLRVYL RTYALDQMVQ AASSSAGLRT IKRVEQFLQE LKVNLKPKVP TKAVCAEHLE  360
LRKEILTLLN LQKLLQNKEE GSYNETPDTP KRVMDLDRTF IPDPVVSFGE RVVKRDQKRK  420
GPGAGPGREA PSSPAQSKRP RKLKATDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	6e-20	102	189	4	93	DNA methyltransferase 1-associated protein 1
4iej_A	6e-20	102	189	4	93	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	412	418	VKRDQKR

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023739253.1	0.0	SWR1-complex protein 4
Refseq	XP_023739254.1	0.0	SWR1-complex protein 4
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A2J6K3E3	0.0	A0A2J6K3E3_LACSA; Uncharacterized protein
STRING	EOX95358	0.0	(Theobroma cacao)

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
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]