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 Thhalv10016263m
Common NameEUTSA_v10016263mg
Organism
Eutrema salsugineum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Eutremeae; Eutrema
Family B3
Protein Properties Length: 810aa    MW: 88267.8 Da    PI: 7.5465
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thhalv10016263mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B354.81.7e-17305400194
                      EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                      f+k+l+ sd+++ grlvlpk +ae++   +++ e++ l+++d +g++W++++++  +++s++yvl+ G     ++  L +gD+v+F++++  ++
  Thhalv10016263m 305 FEKTLSASDAGRIGRLVLPKACAEAYfpPISQSEGIPLKIQDVRGKEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMMLLAGDTVTFSRVD-PGG 396
                      99**************************666678889***************9989999999***9.********************765.666 PP

                      ..EE CS
               B3  91 elvv 94 
                      +l +
  Thhalv10016263m 397 KLIM 400
                      5555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-18302400IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.9E-27302406IPR015300DNA-binding pseudobarrel domain
CDDcd100174.95E-22303400No hitNo description
PfamPF023625.9E-15305400IPR003340B3 DNA binding domain
SMARTSM010192.7E-21305405IPR003340B3 DNA binding domain
PROSITE profilePS5086310.193305406IPR003340B3 DNA binding domain
PROSITE profilePS5105013.34556606IPR011124Zinc finger, CW-type
PfamPF074963.2E-9562603IPR011124Zinc 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: 810 aa     Download sequence    Send to blast
MFEVKMGSKM CMNASCGSTS TVEWKKGWPL RSGALADLCY RCGSAYESSL FCETFHMDQS  60
GWRECYLCSK RLHCGCIASK LMVELMDYGG VGCTTCASCH QLNLNKRSEN PGLFSRLPLK  120
TLAERQHING ESGMSIDGGR NEADLFSQSQ RCDSQPLVPG VDKREDFMPP HRGFGILKSE  180
NSTGYRLDAG EMHESSPLQP SLNMALAVHP YSPSFASTPV EGKKHIGPSQ SHIVQCSASS  240
ILQKPSKSVL GTPPGTSKSA QARIGRPPVE GRGKGHLLPR YWPKYTDKEV QQISGNLNLN  300
IVPLFEKTLS ASDAGRIGRL VLPKACAEAY FPPISQSEGI PLKIQDVRGK EWTFQFRFWP  360
NNNSRMYVLE GVTPCIQSMM LLAGDTVTFS RVDPGGKLIM GSRKAAHNTG DMQGYGLTNG  420
TSNEDTSSSG VTENPSSINA SSCPSQIPEE LKGLPENLNG GSCSKKSEIN GGTMCDDPPR  480
PKDKKRTRTI GAKNKRLLLH SEESMELRLT WEEAQDLLRP APSAKPTIVV IEEHEFEEFD  540
EPPVFGKRTI ITSRPSGEQE RWASCDDCSK WRRLPVDALL SVKWTCSDNV WDVSRCSCSA  600
PEESLKELEN VLRAGKDCKK RRIGVSQTAK TGQEPSGLDA LASAAVLGDA LGEPEVATTT  660
RHPRHRVGCS CIVCIQPPSG KGRHKPNCGC NVCSTVRRRF KTLMMRRKKK QLERDGPAAA  720
AAEDQENAEA KQGDSDKSKA EEEVKTGRID LNSDPYNRED IEAVAVEKEG SEGREVGQCS  780
GVAQGGDVLG VTELVGEAEK ISEEPKGSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A5e-842834142132B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1696708RRRFKTLMMRRKK
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
PlantRegMapThhalv10016263m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3535020.0AK353502.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-47-G20.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006410148.10.0B3 domain-containing transcription repressor VAL1
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLV4NXH20.0V4NXH2_EUTSA; Uncharacterized protein
STRINGXP_006410148.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69232440
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]