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 Lj3g3v1427070.2
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family B3
Protein Properties Length: 548aa    MW: 61353 Da    PI: 6.7611
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj3g3v1427070.2genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B352.11.2e-16297598
                     -..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
               B3  5 ltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96
                     l+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++l +++
  Lj3g3v1427070.2  2 LSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLQIQDVKGKEWMFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRME-PEGKLIMGF 95
                     5789********************555566778***************9989999999***9.********************876.677677766 PP

                     E- CS
               B3 97 fr 98
                     ++
  Lj3g3v1427070.2 96 RK 97
                     65 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086310.814199IPR003340B3 DNA binding domain
SMARTSM010194.4E-15198IPR003340B3 DNA binding domain
PfamPF023622.6E-14297IPR003340B3 DNA binding domain
CDDcd100178.08E-20297No hitNo description
Gene3DG3DSA:2.40.330.101.7E-262105IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-16297IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5105013.392227277IPR011124Zinc finger, CW-type
PfamPF074962.4E-9232274IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 548 aa     Download sequence    Send to blast
MLSASDAGRI GRLVLPKACA EAYFPPISQP EGLPLQIQDV KGKEWMFQFR FWPNNNSRMY  60
VLEGVTPCIQ SMQLQAGDTV TFSRMEPEGK LIMGFRKAKT SAVVQSQKGC SETHLNALSK  120
SWNSAGGDMN WHNIDMPEGR KRDGLPVPPV MVPEKKRTRN IGSKSKRLLF DSQDALELQL  180
TWEEAQDLLR PPPTVKPSVV MIEDHEFEEY DEPPVFGKRS IFVARPTGIN EQWTQCDICS  240
KWRKLPVDVL IPPKWTCVEN QWDQSRCSCS APNELNPREL DKLLRQNKEF KKQRLAASHR  300
QGLERESSGL DALANAAVLG DDASDSGRTP VTTTTRHPRH RPGCSCIVCI QPPSGKGKHK  360
PTCTCNVCMT VKRRFKTLMM RKKKRQSERE AEMAQKNQLS WRTKDESEVD STVQHLTPVN  420
GSENETRVPN ALESRSQDCA AEASKGGKLD LNCQPDREDT QAGPNSVSMM GLLEEANLPL  480
ETYLKQNGLT SLISEQQTNS ASNVQAQTAN ESEGRNNEDC NTTSAVHDQQ SSPEEDSEQD  540
KDQNNSLT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A8e-57210628132B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1371382KRRFKTLMMRKK
2371384KRRFKTLMMRKKKR
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 VAL1/HSI2. {ECO:0000269|PubMed:17158584, ECO:0000269|PubMed:17267611}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj3g3v1427070.2
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_028224301.10.0B3 domain-containing transcription repressor VAL2-like isoform X2
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A445L6V00.0A0A445L6V0_GLYSO; B3 domain-containing protein isoform B
STRINGGLYMA03G04330.20.0(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-like 1
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. 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]
  3. 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]
  4. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]