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 Lus10022741
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family B3
Protein Properties Length: 786aa    MW: 87330.6 Da    PI: 8.0915
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10022741genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.72.1e-18295394198
                  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++++  e++l +
  Lus10022741 295 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGIPLRIQDIKGKNWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRID-PERKLIM 390
                  99**************************666778899***************9989999999***9.********************887.5555666 PP

                  EEE- CS
           B3  95 kvfr 98 
                  ++++
  Lus10022741 391 GFRK 394
                  6554 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.9E-28290401IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.7E-19292394IPR015300DNA-binding pseudobarrel domain
CDDcd100171.24E-22293394No hitNo description
SMARTSM010197.1E-20295395IPR003340B3 DNA binding domain
PROSITE profilePS5086310.546295396IPR003340B3 DNA binding domain
PfamPF023621.2E-15295394IPR003340B3 DNA binding domain
PROSITE profilePS5105014.244521571IPR011124Zinc finger, CW-type
PfamPF074961.8E-11526568IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 786 aa     Download sequence    Send to blast
MASSKHCMNA LCGASTSSVW IKGWGLRSGE FANLCDKCGL AFEQSIFCEV FHPKDPGWRE  60
CTSCGKRLHC GCVASILLVE LLDDGGVKCL NCYRKSGANT VGDDKKPNGF VKSRINDIAE  120
MQSLSAENGR MGARSLLQSH GDDINASFRQ MKQQLIFPKM GETGSTSFSH FDQASNILSP  180
PVKDIGAKDL YESLAHTNFS MGLGPLGNSS PFGMVVDERS QSKTPLVPGS SSRHLLFKPP  240
NIATGMEPNH TIRIARPPAE GRGRSQLLPR YWPRITDQEL QQISMDPNST IYPLFEKVLS  300
ASDAGRIGRL VLPKACAEAY FPPISQPEGI PLRIQDIKGK NWVFQFRFWP NNNSRMYVLE  360
GVTPCIQSMQ LQAGDTVTFS RIDPERKLIM GFRKAPNPAT TQGSSDAHLS AMSKHFQSAS  420
GDTSSWFKSE KEDMSREGSM QPSTLVPEKK RARNIGTKSK RLSMANQDAS ELKLTWEEAQ  480
DLLRPAPTSK PNIVTIDDHE FEEYDEPPVF GKTSIFVVHS TGTQEQWAEC DNCSKWRKLP  540
VDFLLPPKWT CSENTWDQSR NSCSVPDELS PKELDNLLRQ NKDHNKRRLT SKQGGAQEPE  600
SSGLEALANV AIHGDVGPTT TKHPRHRAGC SCIVCIQPPS GKGKHKPNCT CNVCKTVKRR  660
FETLLKRKKK RLSDREAELA AQMNQQQQQE GETSSRSNRS RSTEKPLVEN GKGRIDLNYC  720
PDREEDSSEV IVKNQIMTML DLLQAATNHL PLENYRNCPT NFASEQETGS TYRVPSQETD  780
GEDNP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-662734032132B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1657670KRRFETLLKRKKKR
2658670RRFETLLKRKKKR
3664671LKRKKKRL
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
PlantRegMapLus10022741
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_015580571.10.0B3 domain-containing transcription repressor VAL2 isoform X2
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLB9SRS40.0B9SRS4_RICCO; Transcription factor, putative
STRINGLus100227410.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF110183239
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]