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 Aradu.F9SP6
Organism
Arachis duranensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis
Family B3
Protein Properties Length: 907aa    MW: 100613 Da    PI: 7.9931
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Aradu.F9SP6genomeNCGR_PGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B361.11.9e-19332432199
                  EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                  f+kvl+ sd+++ grlvlpk +ae++   +++ e+  l+++d +g++W++++++  +++s++yvl+ G     ++ +L++gD+v+F++++  +++lv+
  Aradu.F9SP6 332 FEKVLSASDAGRIGRLVLPKACAEAYfpHISQSEGLPLRVQDVKGNEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLRAGDTVTFSRID-PGGKLVM 427
                  99**************************555566778***************9989999999***9.********************987.8888999 PP

                  EEE-S CS
           B3  95 kvfrk 99 
                  +++r+
  Aradu.F9SP6 428 GFRRA 432
                  99886 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.2E-30328439IPR015300DNA-binding pseudobarrel domain
CDDcd100171.76E-23330431No hitNo description
SuperFamilySSF1019363.14E-20330432IPR015300DNA-binding pseudobarrel domain
PfamPF023621.5E-16332432IPR003340B3 DNA binding domain
SMARTSM010192.8E-22332433IPR003340B3 DNA binding domain
PROSITE profilePS5086311.011332433IPR003340B3 DNA binding domain
PROSITE profilePS5105014.401596646IPR011124Zinc finger, CW-type
PfamPF074967.8E-12601643IPR011124Zinc 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: 907 aa     Download sequence    Send to blast
MGSDICVNGS CCVHEWKKGW PLRSGGFAQL CIKCGFMEEW KREIIDTLSA NEYSLFCNNF  60
HRRETGWKEC NFCNKPIHCG CIASKSLFEY LDFGGVGCVS CVNASQLRLT RNTENGSVST  120
TKNNASDRHS AHIDNRQFVS SVDEGKLMEF CRIVEASESS RWNHAQRDNI ISCNGQNGKE  180
VTFREVESGF SNVIKPSVQS LTFSALENSR PTWEIKSRHE PMTQPSLNMC LGNPSGSNLV  240
LPSATEIAEG RLESKASNFQ QRSRPILPKP SKTGLTMNVE TDKGSTSQAR IARPPAEGRG  300
KNQLLPRYWP RITDQELERL SGDLKSTVVP LFEKVLSASD AGRIGRLVLP KACAEAYFPH  360
ISQSEGLPLR VQDVKGNEWT FQFRFWPNNN SRMYVLEGVT PCIQSMQLRA GDTVTFSRID  420
PGGKLVMGFR RATNSSDTQD ASTSAQSNGI STTGTISGGT ENLLSGSNYA DLLQSAKGNG  480
EPNSSGHPEH PRSGTGAAAV LKTENCEEMI NNHSVKQPIP VSEKKRTRNI GPKSKRLLID  540
NEDSMELRLT WEEAQDLLRP PPSVKPSIVT IEDQIFEEYD EPPVFGKRTI FSACSSGGKE  600
QWAQCDDCSK WRKLPVDALL PPKWNCSENV WDASRASCSA PEEMSSRELE NLLRTNKDLK  660
KRRIAENNKP IQEHEPSGLD ALASAAVLGD NLVDPVESSA GATTRHPRHR PGCSCIVCIQ  720
PPSGKGRHKP TCTCNVCMTV KRRFKTLMLR KKKRQSEREA DAAQKGHIPR KDESDTNGRA  780
SRDYPKPSHL DKEGGLNKDQ QPAHVGESNA GQIDLNSHPN RDDMAADTSA PCTSNHLETT  840
NREVRNYMNQ NGVRSYNNGE MQDNQHPSLL NQSNGGCFGS SIVWKMERKD EVYNHANQSQ  900
SHSQNNN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-683104392131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1740751KRRFKTLMLRKK
2740753KRRFKTLMLRKKKR
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
PlantRegMapAradu.F9SP6
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1419235e-44AC141923.27 Medicago truncatula clone mth2-7f19, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015949087.10.0B3 domain-containing transcription repressor VAL1 isoform X1
RefseqXP_015949092.10.0B3 domain-containing transcription repressor VAL1 isoform X1
RefseqXP_015949101.10.0B3 domain-containing transcription repressor VAL1 isoform X1
RefseqXP_025692072.10.0B3 domain-containing transcription repressor VAL1 isoform X1
RefseqXP_025692076.10.0B3 domain-containing transcription repressor VAL1 isoform X1
RefseqXP_025692081.10.0B3 domain-containing transcription repressor VAL1 isoform X1
SwissprotQ8W4L50.0VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBLA0A445AMB10.0A0A445AMB1_ARAHY; Uncharacterized protein
STRINGGLYMA11G31234.10.0(Glycine max)
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]