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 CCG029468.1
Organism
Populus euphratica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family B3
Protein Properties Length: 864aa    MW: 95061.8 Da    PI: 6.4651
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
CCG029468.1genomeLZUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B361.11.9e-19330429198
                  EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                  f+k+l+ sd+++ grlvlpk +ae++   +++ e++ l+++d +gr+W++++++  +++s++yvl+ G     ++ +Lk+gD+++F++++  +++lv+
  CCG029468.1 330 FEKILSASDAGRIGRLVLPKACAEAYfpPISQSEGIPLKIQDIKGREWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLKAGDTITFSRID-PGGKLVM 425
                  99**************************666678889***************9989999999***9.********************887.7777777 PP

                  EEE- CS
           B3  95 kvfr 98 
                  ++++
  CCG029468.1 426 GFRK 429
                  7765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-21327431IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.6E-30327433IPR015300DNA-binding pseudobarrel domain
CDDcd100171.49E-24328429No hitNo description
SMARTSM010197.0E-24330430IPR003340B3 DNA binding domain
PROSITE profilePS5086311.321330431IPR003340B3 DNA binding domain
PfamPF023621.2E-16330429IPR003340B3 DNA binding domain
PROSITE profilePS5105014.506570620IPR011124Zinc finger, CW-type
PfamPF074962.1E-10575617IPR011124Zinc 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: 864 aa     Download sequence    Send to blast
MGTKICMNAS CQTTTTHEWK SGWPLRSGGH ALLCFNCGSA YEDSLFCDTF HSEEPGWREC  60
NMCTKRLHCG CIASKFLLEL LDYGGVGCSS CARSSRLHSM QSDEIPNGYG SLTRNNAGDL  120
ESIPVESTVA ANDYDEGGLA QLCRLIEASE PSLLHPSERA NANGCLGQFR QEDIRHAIGD  180
IGTGFSNMTL PSVGSSKFTK PDSMSSLLDM RDMHCSLSEP SLSMALGAPS GTTNFAPFPG  240
GAVEGREQGK TPSSFQQGQR SRPILPKPSK PGLLSGSENN KGAASELRIA RPPAEGRGKN  300
QLLPRYWPRI TDQELQQLSG DLNSKIVPLF EKILSASDAG RIGRLVLPKA CAEAYFPPIS  360
QSEGIPLKIQ DIKGREWTFQ FRFWPNNNSR MYVLEGVTPC IQSMQLKAGD TITFSRIDPG  420
GKLVMGFRKS TNNNEDIQDA QASGLPDGTA SGETSLSGTV ETLLAVSADG YIGWNNSENH  480
GGGINGDLLQ QTTAPTEKKR TRNIGPKSKR LLMHSEDAME LRLTWEEAQD LLRPPPSVKP  540
TIVTIEDHEF EEYDEPPVFG KRTMFTSRSP GRQDQWAQCD DCSKWRKLPV DALLPPKWTC  600
SENAWDSSRC TCSVPEEMTP KDLDNLLRVS KDFKKRRILE SQKRFQNCEP SGLDALASAA  660
VLGDNLDDSG EPSVGATTKH PRHRPGCTCI VCIQPPSGKG KHKPTCTCNV CMTVKRRFKT  720
LMLRKKKRQS EREAETSQKD NMDRKESEAN GTMSHEVLHI NNPETEVSQS KTQTEKPETS  780
AGQIDLNCHP NREDMPLDMP GLGTMNLVDL ANSPLDNYIK QNGLSSLVWD QEGGQAQHSG  840
ESLRRLSDEA FLASIGWTHE SRRD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5yzy_C2e-713084321125B3 domain-containing transcription repressor VAL1
5yzz_C2e-713084321125B3 domain-containing transcription repressor VAL1
5z00_C2e-713084321125B3 domain-containing transcription repressor VAL1
5z00_G2e-713084321125B3 domain-containing transcription repressor VAL1
5z00_K2e-713084321125B3 domain-containing transcription repressor VAL1
5z00_M2e-713084321125B3 domain-containing transcription repressor VAL1
6j9a_A2e-713084322126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1714725KRRFKTLMLRKK
2714727KRRFKTLMLRKKKR
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011041785.10.0PREDICTED: B3 domain-containing transcription repressor VAL1-like
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLA0A2K1WTD30.0A0A2K1WTD3_POPTR; Uncharacterized protein
STRINGPOPTR_0019s15070.10.0(Populus trichocarpa)
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]