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 Csa07g012680.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family B3
Protein Properties Length: 803aa    MW: 87796.9 Da    PI: 7.7003
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa07g012680.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.45.4e-18301395193
                     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+++++y  +++s++yvl+ G     ++  L++gD+v+F++++  +++
  Csa07g012680.1 301 FEKTLSASDAGRIGRLVLPKACAEAYfpPISQSEGIPLKIQDVKGKEWTFQFRYwpNNNSRMYVLE-GVTPCIQSMLLQAGDTVTFSRVE-PGGK 393
                     99**************************666678889*****************89999999***9.********************665.5555 PP

                     .E CS
              B3  92 lv 93 
                     l 
  Csa07g012680.1 394 LI 395
                     54 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.2E-29298408IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-19298401IPR015300DNA-binding pseudobarrel domain
CDDcd100171.23E-23299396No hitNo description
SMARTSM010191.1E-21301401IPR003340B3 DNA binding domain
PfamPF023622.8E-15301395IPR003340B3 DNA binding domain
PROSITE profilePS5086310.489301402IPR003340B3 DNA binding domain
PROSITE profilePS5105013.235554604IPR011124Zinc finger, CW-type
PfamPF074968.9E-8560601IPR011124Zinc 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: 803 aa     Download sequence    Send to blast
MFEVKMGSKM CMNASCGTTS TVEWKKGWPL RSGLLADLCY RCGSAYESSL FCEQFHKDQS  60
GWRECYLCNK RLHCGCIASK VMIELMDYGG VGCSTCASCH QLNLNKRGEN PGVFSRLTMK  120
ALADRQHVNG ESGMNIEGGR NEADLFSQAH RGEAQPLVMG GDKREEFMPH RGFGNTTTGY  180
RLDAGEMHES SPSQPSLNMG LSVLPYSPSF STEGIEGKKH IGASSQSNMV HCSASNILQK  240
PSKPAMSTPP VGSKSAQARI GRPPVEGRGK GHLLPRYWPK YTDKEVQQIS GNLNLNIVPL  300
FEKTLSASDA GRIGRLVLPK ACAEAYFPPI SQSEGIPLKI QDVKGKEWTF QFRYWPNNNS  360
RMYVLEGVTP CIQSMLLQAG DTVTFSRVEP GGKLIMGSRK SANGGDMQGC GVTNGTSTED  420
TSSSGVTENP PSINGSSGPS VIPKESNGMP ENLSSPYGGS SSTKNENNGG RIGDDPTRVK  480
EKKRTRTIGA KNKRLLLHSE ESMELRLTWE EAQDLLRPAP SAKPTIVVVE EHEIEEFDEP  540
PVFGKRTIVT TTPSGEQERW TSCDDCSKWR RLPINALLPF KWTCIDNVWD ASRCSCSTPE  600
ESLKELENVL KAEYKKRRTG ESQAAKSEQE QSGLDALASA AVLGDTIGEP EVATTTRHPR  660
HRAGCSCIVC IQPPSGKGRH KPNCGCNVCS TVKRRFKTLM MRRKKKLLER DGPAAEDKEK  720
KDMEQAESDK SKAEKEANSA RIDLNSDPYN KEDVEAVAVE KDESRKRKIG ESSGEAQDGD  780
GLGVKELEGE AEKIGEDPRG SS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-852794092132B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1692704KRRFKTLMMRRKK
2701706RRKKKL
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
PlantRegMapCsa07g012680.1
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_010414264.10.0PREDICTED: B3 domain-containing transcription repressor VAL1
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLR0HB220.0R0HB22_9BRAS; Uncharacterized protein
STRINGXP_010414264.10.0(Camelina sativa)
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]