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

Migut.N00730.1.p

Organism

Mimulus guttatus

Taxonomic ID

4155

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Phrymaceae; Erythranthe

Family

Protein Properties

Length: 842aa MW: 92913.4 Da PI: 6.4041

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Migut.N00730.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	58.5	1.2e-18	289	388	1	98
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+k+l+ sd+++ grlvlpk +ae++ ++++ e++ ++++d +g++W +++++ +++s++yvl+ G + +L++gD+v+F++++ + Migut.N00730.1.p 289 FEKILSASDAGRIGRLVLPKACAEAYfpSINQSEGIPIKIQDIKGKEWIFQFRFwpNNNSRMYVLE-GVTPCIQNMQLQAGDTVIFSRID-PG 379 99************************888889999***********99899999999.*******************887.77 PP E..EEEEE- CS B3 90 felvvkvfr 98 ++lv++ ++ Migut.N00730.1.p 380 GQLVIGCRK 388 778887765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	8.1E-28	286	393	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.44E-19	286	390	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.24E-22	287	388	No hit	No description
PROSITE profile	PS50863	10.701	289	390	IPR003340	B3 DNA binding domain
SMART	SM01019	1.9E-19	289	389	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.2E-15	289	388	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	13.403	510	560	IPR011124	Zinc finger, CW-type
Pfam	PF07496	1.1E-11	516	557	IPR011124	Zinc finger, CW-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 842 aa Download sequence Send to blast
MGSKNCMNQL CRATTSSEWK KGWILKSGGF ATLCYNCGSA YENSVFCETF HSDESGWREC 60 RICGKLVHCG CIASKYLHEY MDFGGISCSS CSKRLEIHTP PSIQSRGDIP SSAFIPKSGG 120 IRDARPIVIE KRIEEDRFST ERLLQLTKAI AVNEFSPESS KRAPNPSPHS SSVFAKIDSK 180 SQAKPGVKDM FESHAQPSRN FSLTVPPLTG EKILEGGESS KDGGPKTRHV FSRPPKPTPL 240 GAAPQARVAR PPADGRGRNL LLPRYWPRIT DQELQQLSGD LKSTIVPLFE KILSASDAGR 300 IGRLVLPKAC AEAYFPSINQ SEGIPIKIQD IKGKEWIFQF RFWPNNNSRM YVLEGVTPCI 360 QNMQLQAGDT VIFSRIDPGG QLVIGCRKTA NNVDVQDSQT SALPNDSVAE RETPIPDNLP 420 SNGSRAGDDS GQQHLTLSEK RKAKNIKNKR LVMNNNEAMD LRITWDEAQE LFRPSPSAER 480 TVFVVEDLEI EEFEEPPVFG KRTMFVCGPS GEQEQVVQCD SCSKWRRLPV DALLSANWTC 540 SDNIWDSTRC SCSAPEDINS RDLDIVNKDY KKRRISSGEG EPSGLDALAN AAVLGGDNIG 600 DMGGEYSVGA TAAAATTTRH PRHRPGCTCI VCIQPPSGKG KHDPSCKCNV CLTVRRRFKT 660 LMMRKKKRQS DREAELELAL VKMENDNNNK IDNNNINNNS NNNNINNITT TTTNNNIINN 720 DHNNNINIKN INNNAKIDKE SEDIVGEALV SMNRQREENE GQNGNTVDLV EETSSKGHKL 780 DLNCDPHRED EVLLEASGMS LTALMNAASC PLDDMYLVPQ AANVVEENVA DVEPEKIRED 840 G*

Sequence ? help Back to Top

Protein Sequence Length: 842 aa Download sequence Send to blast

MGSKNCMNQL CRATTSSEWK KGWILKSGGF ATLCYNCGSA YENSVFCETF HSDESGWREC  60
RICGKLVHCG CIASKYLHEY MDFGGISCSS CSKRLEIHTP PSIQSRGDIP SSAFIPKSGG  120
IRDARPIVIE KRIEEDRFST ERLLQLTKAI AVNEFSPESS KRAPNPSPHS SSVFAKIDSK  180
SQAKPGVKDM FESHAQPSRN FSLTVPPLTG EKILEGGESS KDGGPKTRHV FSRPPKPTPL  240
GAAPQARVAR PPADGRGRNL LLPRYWPRIT DQELQQLSGD LKSTIVPLFE KILSASDAGR  300
IGRLVLPKAC AEAYFPSINQ SEGIPIKIQD IKGKEWIFQF RFWPNNNSRM YVLEGVTPCI  360
QNMQLQAGDT VIFSRIDPGG QLVIGCRKTA NNVDVQDSQT SALPNDSVAE RETPIPDNLP  420
SNGSRAGDDS GQQHLTLSEK RKAKNIKNKR LVMNNNEAMD LRITWDEAQE LFRPSPSAER  480
TVFVVEDLEI EEFEEPPVFG KRTMFVCGPS GEQEQVVQCD SCSKWRRLPV DALLSANWTC  540
SDNIWDSTRC SCSAPEDINS RDLDIVNKDY KKRRISSGEG EPSGLDALAN AAVLGGDNIG  600
DMGGEYSVGA TAAAATTTRH PRHRPGCTCI VCIQPPSGKG KHDPSCKCNV CLTVRRRFKT  660
LMMRKKKRQS DREAELELAL VKMENDNNNK IDNNNINNNS NNNNINNITT TTTNNNIINN  720
DHNNNINIKN INNNAKIDKE SEDIVGEALV SMNRQREENE GQNGNTVDLV EETSSKGHKL  780
DLNCDPHRED EVLLEASGMS LTALMNAASC PLDDMYLVPQ AANVVEENVA DVEPEKIRED  840
G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	6e-68	267	396	2	131	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	654	665	RRRFKTLMMRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL2/HSL1. {ECO:0000269\|PubMed:15894743, ECO:0000269\|PubMed:17158584, ECO:0000269\|PubMed:17267611}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Migut.N00730.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012838059.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL1-like
Swissprot	Q8W4L5	0.0	VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBL	A0A022R972	0.0	A0A022R972_ERYGU; Uncharacterized protein

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1491	23	65

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30470.1	0.0	high-level expression of sugar-inducible gene 2

Link Out ? help Back to Top
Phytozome	Migut.N00730.1.p

Publications ? help Back to Top
Jia H,McCarty DR,Suzuki M Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression. Plant Physiol., 2013. 163(3): p. 1293-305 [PMID:24043445] Schneider A, et al. Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos. Plant J., 2016. 85(2): p. 305-19 [PMID:26678037] Chhun T, et al. HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth. Plant Cell Physiol., 2016. 57(8): p. 1689-706 [PMID:27335347] Qüesta JI,Song J,Geraldo N,An H,Dean C Arabidopsis transcriptional repressor VAL1 triggers Polycomb silencing at FLC during vernalization. Science, 2016. 353(6298): p. 485-8 [PMID:27471304] Yuan W, et al. A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis. Nat. Genet., 2016. 48(12): p. 1527-1534 [PMID:27819666] Merini W, et al. The Arabidopsis Polycomb Repressive Complex 1 (PRC1) Components AtBMI1A, B, and C Impact Gene Networks throughout All Stages of Plant Development. Plant Physiol., 2017. 173(1): p. 627-641 [PMID:27837089] Li C,Cui Y A DNA element that remembers winter. Nat. Genet., 2016. 48(12): p. 1451-1452 [PMID:27898079] Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis. Plant Cell, 2018. 30(3): p. 600-619 [PMID:29475938] Sasnauskas G,Kauneckaite K,Siksnys V Structural basis of DNA target recognition by the B3 domain of Arabidopsis epigenome reader VAL1. Nucleic Acids Res., 2018. 46(8): p. 4316-4324 [PMID:29660015] Wu B, et al. Structural insight into the role of VAL1 B3 domain for targeting to FLC locus in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(2): p. 415-422 [PMID:29733847]