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_010522013.1
Organism
Tarenaya hassleriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family B3
Protein Properties Length: 697aa    MW: 76413 Da    PI: 8.1663
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010522013.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3629.6e-20196295198
                     EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                     f+k+l+ sd+++ grlvlpk +ae++  ++ + e++ l+++d +g++W++++++  +++s++yvl+ G     ++ +L++gD+v+F++++  +++
  XP_010522013.1 196 FEKTLSASDAGRIGRLVLPKACAEAYfpSIHQSEGIPLKIQDVKGKEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRID-PGGK 288
                     99**************************667778899***************9989999999***9.********************887.7888 PP

                     .EEEEE- CS
              B3  92 lvvkvfr 98 
                     lv+++++
  XP_010522013.1 289 LVLGFRK 295
                     8888776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.63E-22193299IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.1E-31193301IPR015300DNA-binding pseudobarrel domain
CDDcd100173.75E-24194295No hitNo description
PfamPF023625.9E-17196295IPR003340B3 DNA binding domain
SMARTSM010194.3E-23196297IPR003340B3 DNA binding domain
PROSITE profilePS5086310.955196297IPR003340B3 DNA binding domain
PROSITE profilePS5105013.844449499IPR011124Zinc finger, CW-type
PfamPF074963.4E-10454496IPR011124Zinc 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: 697 aa     Download sequence    Send to blast
MMLAERQPPN GESGILGNNI DSGRLSQLCQ VVEANEPDRF PQSQRGDPKT LLGGDKREEF  60
MPQPELGKLF KPESTKSVME TRDMQESLSQ PSLSMSLAVT PSGPPFPSGV VEGKKQSNVT  120
RSPTVQSSCS VLPKPSKSAV STPGTSKAAS CPLRSARPPV EGRGRNHLLP RYWPRITDQE  180
LQQISGNLNS KIVPLFEKTL SASDAGRIGR LVLPKACAEA YFPSIHQSEG IPLKIQDVKG  240
KEWTFQFRFW PNNNSRMYVL EGVTPCIQSM QLQAGDTVTF SRIDPGGKLV LGFRKTACGG  300
EQQGSGLTNG TSAEDTSSSG VTENPSSIND PAGPLQMPKE MKGLPEHLSS PDGEISLQKN  360
KNNGVRTGDG SPQIKEKKRT RNIGTKNKRL LLHNEESMEL RLTWEEAQDL LRPSPSAKPT  420
IVTIEDNEFE EYDEPPVFGK KTVFTSRPSG GQEQWAQCDD CSKWRRLPLD ALLPSRWTCS  480
DNVWDLDRCS CSVPEKNLKE LESFLGVGRE TKKQRSGEKQ REGRKEEASG LEALASAAAL  540
GDSIGDGSRG AAVAVAVATT TRHPRHREGC SCIVCIQPPS GKGKHKPTCC CNVCMTVKRR  600
FRTLMLRKKK KQQQLDLRGK EEEEEEEEEA QKAEPDKNKP GKEGSTSGRI DLNSDPYNKE  660
GVGIPLREKE DEAVESRGNG RGGLLGGVAD QENRSKE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A7e-751743042132B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1597608KRRFRTLMLRKK
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_010522013.1
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_010522013.10.0PREDICTED: B3 domain-containing transcription repressor VAL1-like isoform X2
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLR0HB220.0R0HB22_9BRAS; Uncharacterized protein
STRINGXP_010522011.10.0(Tarenaya hassleriana)
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]