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 Pbr017287.1
Organism
Pyrus bretschneideri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus
Family B3
Protein Properties Length: 892aa    MW: 98437.6 Da    PI: 6.6593
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pbr017287.1genomeCPETRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B360.33.2e-19320420199
                  EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                  f+kvl+ sd+++ grlvlpk +ae++   +++ e+  ++++d +g++W++++++  +++s++yvl+ G     ++ +L++gD+v+F++++  +++lv+
  Pbr017287.1 320 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQSEGLPIRIQDVKGNEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRID-PGGRLVI 415
                  99**************************555556677***************9989999999***9.********************987.8999999 PP

                  EEE-S CS
           B3  95 kvfrk 99 
                  +++++
  Pbr017287.1 416 GFRKA 420
                  99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.4E-29316420IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.05E-20317419IPR015300DNA-binding pseudobarrel domain
CDDcd100172.61E-24318419No hitNo description
SMARTSM010192.4E-23320421IPR003340B3 DNA binding domain
PROSITE profilePS5086311.18320421IPR003340B3 DNA binding domain
PfamPF023621.1E-16320420IPR003340B3 DNA binding domain
PROSITE profilePS5105014.843583633IPR011124Zinc finger, CW-type
PfamPF074966.4E-11588630IPR011124Zinc 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
MESKICMNPS CRMANTHEWK KGWPLRTGGF AHLCYKCGVE YENSVYCNTF HSGETGWRDC  60
NLCHKPLHCG CIVSETLYEC LDFGGIGCIG CASQPRMIQD GDVLNGFGGL KISDSGDQQS  120
TVPQNGALSD TANEGKLLQL CQVMEANESN LSSQSQRGEI NVSPVQTKRE EVTYPRGEVG  180
PGFSSISRPS FGSLTFAKPD NGRIMIEVKD MNKPSSDPSL SMTLGGPSAT PNFAQPFTGG  240
ILERRDQIKT SSSFQQGQKI QPIFPRPLRP PPPVHHVRVA RPPAEGRGKS QLLPRYWPRI  300
TDQELQKLAG DLNSTIVPLF EKVLSASDAG RIGRLVLPKA CAEAYFPPIS QSEGLPIRIQ  360
DVKGNEWTFQ FRFWPNNNSR MYVLEGVTPC IQSMQLQAGD TVTFSRIDPG GRLVIGFRKA  420
SRCLDVQESQ TSFLPNGTPG ETSCPSVVEN LVTGSGHSSI YQTSTGSKDP YLNALSGHLH  480
LADGDTSLHD NENHSHFTSE DLQQKPVSNS DKKRARNIGP KSKRLLLHSE DVLELRLTWE  540
EAQDLLRPPP SVKPSIVTIE DHEFEEYDEP PVFGKRSLFI AESERQEQWA QCDDCSKWRR  600
LPVDVLLPPK WTCSENSWDI NRCSCSAPEE VSQKELNNLL RPSKDLKKRR IVVNHNEAQE  660
HEPSGLDALA SASAAILGDS VDYADEQSVG ATTRHPRHRP GCTCIVCIQP PSGKGKHKPT  720
CTCNVCMTVK RRFKTLMMNK RKRKSEREME NAHRDNNDHK DESEMNGTST EIELHMNHLS  780
ENGSSCEKRI QADVAESSCA GQIDLNCVPK HNYVQVSGLN LLRLADAVAQ QPVKNSTKES  840
GLTNRMCEPQ AGLGSSLRTQ DTAETDKLLC NEGSLSSVAA AWDLEGRGDG D*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A2e-692984272131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1729743KRRFKTLMMNKRKRK
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
PlantRegMapPbr017287.1
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009374387.10.0PREDICTED: B3 domain-containing transcription repressor VAL1-like
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLA0A498IPB00.0A0A498IPB0_MALDO; Uncharacterized protein
STRINGXP_009374387.10.0(Pyrus x bretschneideri)
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. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]
  8. 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]
  9. 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]
  10. 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]