PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID 678420571
Organism
Utricularia gibba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia
Family B3
Protein Properties Length: 808aa    MW: 88338.5 Da    PI: 7.251
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
678420571genomeUGSPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B361.21.7e-19302402199
                EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 
                f+k+l+ sd+++ grlvlpk +ae++   +++ e++ ++++d +g++W++++++  +++s++yvl+ G     +  +L++gD+v+F+ +++ +++lv++ 
  678420571 302 FEKILSASDAGRIGRLVLPKACAEAYfpTINQSEGIPIKIQDVKGKEWTFQFRFwpNNNSRMYVLE-GVTPCIQNMQLQAGDTVIFS-QRDPGGQLVIGC 399
                99**************************777788999***************9989999999***9.********************.445999999988 PP

                E-S CS
         B3  97 frk 99 
                +++
  678420571 400 RKA 402
                765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-19299401IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-28299411IPR015300DNA-binding pseudobarrel domain
CDDcd100175.54E-23300401No hitNo description
PROSITE profilePS5086310.884302403IPR003340B3 DNA binding domain
PfamPF023622.8E-16302401IPR003340B3 DNA binding domain
SMARTSM010197.0E-20302402IPR003340B3 DNA binding domain
PROSITE profilePS5105011.89521571IPR011124Zinc finger, CW-type
PfamPF074967.6E-10528567IPR011124Zinc 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: 808 aa     Download sequence    Send to blast
MGSTKNCMNE VCRAATSTEW KKGWSLNSGG VATLCTSCGS AYENLVFCET FHMEDSGWRE  60
CRVCGKLVHC GCIASRYLYE YMDLGGIGCS SCTKLLEIQS AQALQIPCDV PNGNCIPRSE  120
VDSRPLVVES RIDPDKYNTE RLLKMALEHH RLKEPLLTNA ENSKRLPNVS EPCTPSVFVR  180
TDSSQQIQGP KSIYESLSHS PLSFSLSTPP SPVLPFREKG SEGSEQNKGS FKARHSFPKP  240
PKPTLLSGSE ASKGASSQAR VPRPPAEGRG RNQLLPRYWP RITDQELQQL SGDLKTTIVP  300
LFEKILSASD AGRIGRLVLP KACAEAYFPT INQSEGIPIK IQDVKGKEWT FQFRFWPNNN  360
SRMYVLEGVT PCIQNMQLQA GDTVIFSQRD PGGQLVIGCR KATNNMEAQD SQSPAIPTGD  420
ASSEQLVSSS IDDVPSNGAR AAEDTERHME RKKSKNMKNK RLLIHSDDAT ELRITWEEAQ  480
ELFRPASSAQ PTIVIVDGFE FEEFQEPPVF GKRTYFISKP SGEHEQLAQC DSCHKWRRLP  540
AHALLSANWT CSNNIWDLSR CSCSALESIN PKDLDYGSAG NDGKKQRTSE KKPASDAEPT  600
GLDALATAAV LGDNIIDIGE SSVGPTTRHP RHRPGCTCIV CIQPPSGKGK HEPSCKCNVC  660
LTVRRRFKTL MMRKKKRQSD REAAETAHDT DKRNTEKDGI AGRSLLNMNH EEATAGISSM  720
DSGEAGKGRL DLNSDPRHED DGIAAGVSLS TLINAANLPP SDMYLRGLPV PPSETGPPCL  780
LSAAAAANMG KPNISSASME DGNTQGES
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A5e-672804092131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1663674RRRFKTLMMRKK
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
PlantRegMap678420571
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_011080654.20.0LOW QUALITY PROTEIN: B3 domain-containing transcription repressor VAL1
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLA0A2G9GBQ20.0A0A2G9GBQ2_9LAMI; Uncharacterized protein
STRINGMigut.D00818.1.p0.0(Erythranthe guttata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA14912365
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]