PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_010108467.1
Organism
Morus notabilis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Moraceae; Morus
Family B3
Protein Properties Length: 892aa    MW: 98288.6 Da    PI: 6.5496
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010108467.1genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.46.4e-19324424199
                     EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                     f+kvl+ sd+++ grlvlpk +ae++   +++ e+  l+++d +g++W++++++  +++s++yvl+ G     ++ +L++gD+v+F++++  +++
  XP_010108467.1 324 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQSEGLPLRIQDVKGNEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLRAGDTVTFSRID-PGGK 416
                     99**************************555556677***************9989999999***9.********************887.7888 PP

                     .EEEEE-S CS
              B3  92 lvvkvfrk 99 
                     lv++++++
  XP_010108467.1 417 LVMGFRKA 424
                     88887765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.9E-30320430IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-20321424IPR015300DNA-binding pseudobarrel domain
CDDcd100171.92E-23322423No hitNo description
PROSITE profilePS5086311.011324425IPR003340B3 DNA binding domain
SMARTSM010198.3E-23324425IPR003340B3 DNA binding domain
PfamPF023623.9E-16324423IPR003340B3 DNA binding domain
PROSITE profilePS5105014.653590640IPR011124Zinc finger, CW-type
PfamPF074966.6E-13595637IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010030Biological Processpositive regulation of seed germination
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0005739Cellular Componentmitochondrion
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 892 aa     Download sequence    Send to blast
MGSTICMNAS CGTTSTHEWK KGWPLRSGGL AYLCYTCGCA YESSIYCERF HSDEPGWRDC  60
GSCGKQIHCG CIVSKSLYDF LDFGGVGCIS CLNSCRLHSL KNNDMSKGFG GSSDAGDSQS  120
NIIHNRVVAD SVDEGRLMQL CKIMEDNEPS LLPQFQRAEL NASLGQNKQD EIMNQMGEVS  180
REFSSVAQPS FGSLGFAKPD NNRTTLEVKD RHEPLVEPSL SMTLGTSNFV LPFSGKVVGG  240
REQSKTPSPS FESHRQRPIL PKPLKPALNV SESNKGVITQ MRIARPPGEG RGKNQLLPRY  300
WPRITDQELE QLSGDLNSTI VPLFEKVLSA SDAGRIGRLV LPKACAEAYF PPISQSEGLP  360
LRIQDVKGNE WTFQFRFWPN NNSRMYVLEG VTPCIQSMQL RAGDTVTFSR IDPGGKLVMG  420
FRKASNTSDM QEPQASVLPN GTIGESSFSG VTENLPAGPG SSYSGLLQTN KGTKDPLTNA  480
ASEHLHLADV DIGSHKSETN GCRTNEEVMQ QPVSNSEKKR TRNIGSKSKR LLMHSEDVLE  540
LRLTWEEAQD LLRPPPSVEP SIVTIEDHEF EEYDEPPVFG KRTLFISRPS GGQEQWAQCD  600
DCSKWRKLPV EVLLPPKWTC SDNAWDSSRG SCSAPEEMSL KELENLLRSS KDFKKRRTAE  660
NHKATEECEP SGLDALASAA VLGDNVGDSG EPSVGATTKH PRHRPGCTCI VCIQPPSGKG  720
KHKPTCTCNV CMTVKRRFKT LMLRKKKRQS ERKTESAQKD DNQNKDGPET NGTTFKDVLL  780
RMNHSENEDS QSRVQADVAE SSAGQIDLNS DPCREDMQTE VPELTMMGLV QAASSQLENY  840
MKQNGITGLM YNQQPPTLGS CLVKKATGEG GRDMSKEGCL TSVVWERESR VD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A7e-733024312131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1734745KRRFKTLMLRKK
2734747KRRFKTLMLRKKKR
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional 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
SourceLink
PlantRegMapXP_010108467.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010108467.10.0B3 domain-containing transcription repressor VAL1
RefseqXP_024029306.10.0B3 domain-containing transcription repressor VAL1
RefseqXP_024029307.10.0B3 domain-containing transcription repressor VAL1
SwissprotQ6Z3U30.0Y7797_ORYSJ; B3 domain-containing protein Os07g0679700
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLW9SAB70.0W9SAB7_9ROSA; B3 domain-containing protein
STRINGXP_010108467.10.0(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF103233039
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G30470.10.0high-level expression of sugar-inducible gene 2
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]
  9. 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]
  10. 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]
  11. 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]