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 Achn214171
Organism
Actinidia chinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia
Family B3
Protein Properties Length: 505aa    MW: 56025.4 Da    PI: 6.1054
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Achn214171genomeIKGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B353.64.1e-1762172198
                 EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                 f+kvl+ sd+++ grlvlpk +ae +              +++ e++ ++++d +g++W++++++  +++s++yvl+ G     +  +L++gD+v+F++
  Achn214171  62 FEKVLSASDAGRIGRLVLPKACAELYiyvkcelmqayfpPISQSEGVPIRIQDIKGKEWTLQFRFwpNNNSRMYVLE-GVTPCIQNMQLQAGDTVIFSR 159
                 99*********************999*****99999999666678999***************9989999999***9.********************8 PP

                 -SSSEE..EEEEE- CS
          B3  85 dgrsefelvvkvfr 98 
                 ++  +++lv+++++
  Achn214171 160 ID-PGRKLVMGFRK 172
                 76.66666666665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.6E-2656179IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.68E-1859173IPR015300DNA-binding pseudobarrel domain
CDDcd100173.19E-2160172No hitNo description
PfamPF023622.0E-1462172IPR003340B3 DNA binding domain
SMARTSM010192.2E-1662174IPR003340B3 DNA binding domain
PROSITE profilePS5086310.06662173IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 505 aa     Download sequence    Send to blast
MTYRLDEGGV EGMGDDVDRR EKRKEEDLIG VNGEDLHERI VPRDDDGVRV EESLNSTIVP  60
LFEKVLSASD AGRIGRLVLP KACAELYIYV KCELMQAYFP PISQSEGVPI RIQDIKGKEW  120
TLQFRFWPNN NSRMYVLEGV TPCIQNMQLQ AGDTVIFSRI DPGRKLVMGF RKASNSVDMQ  180
DSQTSSLANS APSGETSTSA VNDDLPTKHG GRTNEDLSQR PMPVPEKKRS RNIGSKCKRL  240
LMHSEDAMEL RLTWAEAQEL LSPPPNVKPT VVMVDDQEFE EYEAKSKRRR ITERRNVPQV  300
REPSGLEALA TAAVLGANAG DPDGPSAGPT TKHPRHRPGC TCIVCIQPPS GKGRHKDTCI  360
CNVCLTVKRR FKTFMLRKKK REREAEIARG KDLGPSKDEP DVHVNSPEEE DQRQNTIPKD  420
VAETSKGHLD LNCDPNREDD VLGLMSLVHA ASLPVEMYLR KNGVADLGPY LLSQAAGEID  480
QGRLPDEGCV SSLVGYCANR GDER*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-63441806131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1286290KRRRI
2367378KRRFKTFMLRKK
3367380KRRFKTFMLRKKKR
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}.
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_009772834.11e-164PREDICTED: B3 domain-containing transcription repressor VAL1-like
SwissprotQ8W4L57e-82VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLA0A1U7WDV91e-163A0A1U7WDV9_NICSY; B3 domain-containing transcription repressor VAL1-like
STRINGXP_009772834.11e-164(Nicotiana sylvestris)
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
AT2G30470.13e-84high-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]