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

SapurV1A.1353s0040.1.p

Organism

Salix purpurea

Taxonomic ID

77065

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Salix

Family

Protein Properties

Length: 852aa MW: 94913.4 Da PI: 6.7965

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
SapurV1A.1353s0040.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	61.9	1.1e-19	328	428	1	99
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+l+ sd+++ grlvlpk +ae++ + + e++ ++++d +gr+W++++++ +++s++yvl+ G ++ +Lk+gD+++F+ SapurV1A.1353s0040.1.p 328 FEKILSASDAGRIGRLVLPKACAEAYfpPITQSEGIPVRIQDIKGREWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLKAGDTITFS 413 99***********************9666678889***********99899999999.******************* PP E-SSSEE..EEEEE-S CS B3 84 ldgrsefelvvkvfrk 99 +++ +++lv++++r+ SapurV1A.1353s0040.1.p 414 RID-PGGKLVMGFRRS 428 887.888888888876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.3E-29	324	432	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.57E-21	325	430	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.23E-25	326	427	No hit	No description
PROSITE profile	PS50863	11.434	328	429	IPR003340	B3 DNA binding domain
SMART	SM01019	4.3E-23	328	428	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.8E-17	328	428	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.012	558	608	IPR011124	Zinc finger, CW-type
Pfam	PF07496	8.3E-10	563	605	IPR011124	Zinc finger, CW-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010030	Biological Process	positive regulation of seed germination
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:2000034	Biological Process	regulation of seed maturation
GO:0005634	Cellular Component	nucleus
GO:0005739	Cellular Component	mitochondrion
GO:0003677	Molecular Function	DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 852 aa Download sequence Send to blast
MGSKICMNAS CQTATTHEWK RGWPLRSGGH ALLCYNCGSA YEDSLFCDTF HSEEPGWREC 60 NICSKHLHCG CIASKFLLEL LDYGGVGCAS CARSWRLHLM QSDENPNGFS FLARNNAGDS 120 ESIPVENTVA GNNNNEGGLT QLCRLLEANE PGLLHPTKRA STNGGLVQFK QEEIMHANGD 180 IGTGFSNVTQ PSIGSPKFAK PDNMSSLLDM RDMHSSLSQP YLNMELGAPS GTTNFITFPD 240 GTVEGREHTP SSFQQGQRSR PILQKPSKPG VSTSSENNKG AASELRIARP PAEGRGKNQL 300 LPRYWPRITD QELQQLSGDL NSNIVPLFEK ILSASDAGRI GRLVLPKACA EAYFPPITQS 360 EGIPVRIQDI KGREWTFQFR FWPNNNSRMY VLEGVTPCIQ SMQLKAGDTI TFSRIDPGGK 420 LVMGFRRSTN NDEDTQDIQA SGLPNCTASG ETSFSADGDI GWNNSENHRG RINGDLLQQR 480 TATTEKKRTR NIGPKSKRLL MHSEDAMELR LTWEEAQELL RPPPSMKPTI VTIEDHEFEE 540 YDEPPVFGKR TIFTSRSSWG KEQWAQCDDC SKWRKLPVDA LLPPKWTCSE NTWDSSRCTC 600 FAPEEMTSKD LDNVLRMSKD FKKRRNLESQ KRFQEWEPSG LDALATVAVS GDNLDDPSVG 660 ATTKHPRHRP GCTCIVCIQP PSGKGKHKPT CTCNVCMTVK RRFKTLMLRK KKRQSEREAE 720 ISQKDCMDHK EESEMNGTMS HQVLHVNNSD TEGNQSQRQI EKIETSGEKI DLNCHPNKED 780 MSLDVPRLST LNLVDTANSP LDNYTKQNGF SSLVWDEQGG AAQHGGDSLK RLSDEAFLAA 840 TIGWTHESRR D*

Sequence ? help Back to Top

Protein Sequence Length: 852 aa Download sequence Send to blast

MGSKICMNAS CQTATTHEWK RGWPLRSGGH ALLCYNCGSA YEDSLFCDTF HSEEPGWREC  60
NICSKHLHCG CIASKFLLEL LDYGGVGCAS CARSWRLHLM QSDENPNGFS FLARNNAGDS  120
ESIPVENTVA GNNNNEGGLT QLCRLLEANE PGLLHPTKRA STNGGLVQFK QEEIMHANGD  180
IGTGFSNVTQ PSIGSPKFAK PDNMSSLLDM RDMHSSLSQP YLNMELGAPS GTTNFITFPD  240
GTVEGREHTP SSFQQGQRSR PILQKPSKPG VSTSSENNKG AASELRIARP PAEGRGKNQL  300
LPRYWPRITD QELQQLSGDL NSNIVPLFEK ILSASDAGRI GRLVLPKACA EAYFPPITQS  360
EGIPVRIQDI KGREWTFQFR FWPNNNSRMY VLEGVTPCIQ SMQLKAGDTI TFSRIDPGGK  420
LVMGFRRSTN NDEDTQDIQA SGLPNCTASG ETSFSADGDI GWNNSENHRG RINGDLLQQR  480
TATTEKKRTR NIGPKSKRLL MHSEDAMELR LTWEEAQELL RPPPSMKPTI VTIEDHEFEE  540
YDEPPVFGKR TIFTSRSSWG KEQWAQCDDC SKWRKLPVDA LLPPKWTCSE NTWDSSRCTC  600
FAPEEMTSKD LDNVLRMSKD FKKRRNLESQ KRFQEWEPSG LDALATVAVS GDNLDDPSVG  660
ATTKHPRHRP GCTCIVCIQP PSGKGKHKPT CTCNVCMTVK RRFKTLMLRK KKRQSEREAE  720
ISQKDCMDHK EESEMNGTMS HQVLHVNNSD TEGNQSQRQI EKIETSGEKI DLNCHPNKED  780
MSLDVPRLST LNLVDTANSP LDNYTKQNGF SSLVWDEQGG AAQHGGDSLK RLSDEAFLAA  840
TIGWTHESRR D*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5yzy_C	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
5yzz_C	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
5z00_C	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
5z00_G	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
5z00_K	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
5z00_M	8e-71	306	430	1	125	B3 domain-containing transcription repressor VAL1
6j9a_A	7e-71	306	430	2	126	B3 domain-containing transcription repressor VAL1
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	699	710	KRRFKTLMLRKK
2	699	712	KRRFKTLMLRKKKR

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	SapurV1A.1353s0040.1.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_024439146.1	0.0	B3 domain-containing transcription repressor VAL1
Swissprot	Q8W4L5	0.0	VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBL	A0A2K1Y675	0.0	A0A2K1Y675_POPTR; Uncharacterized protein
STRING	POPTR_0013s15330.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10323	30	39

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	SapurV1A.1353s0040.1.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]