PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Lus10025226
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: 933aa    MW: 102106 Da    PI: 7.2583
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10025226genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.65.4e-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++++  e++lv+
  Lus10025226 332 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGIPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-PEGKLVM 427
                  99**************************666778899***************9989999999***9.********************876.7777888 PP

                  EEE-S CS
           B3  95 kvfrk 99 
                  +++++
  Lus10025226 428 GFRKA 432
                  77765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.1E-30323433IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.84E-20329431IPR015300DNA-binding pseudobarrel domain
CDDcd100173.61E-23330431No hitNo description
SMARTSM010195.6E-21332433IPR003340B3 DNA binding domain
PfamPF023622.2E-16332432IPR003340B3 DNA binding domain
PROSITE profilePS5086311.11332433IPR003340B3 DNA binding domain
PROSITE profilePS5105013.928596646IPR011124Zinc finger, CW-type
PfamPF074961.7E-11601643IPR011124Zinc 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: 933 aa     Download sequence    Send to blast
MASKTCMNAL CGASTSSGWR NGWGLRSGEF AHLCDKCGSA YEQSIFCEVF HSKDSGWREC  60
SSCGKRLHCG CIASRLLLEL LDGGGINCIT CARSSGLISI GANRKPNGFT KSRIDDIMEM  120
QSISVENGMD VDRSLLQLGN NTESIGARQL LQLHGDDTKA SFRQMKQEAM LSPHIGEIGG  180
TSFSHFNQMS NTFSQAAKPE INRATMGPKD LYDSLANTNL TIALGSSLGS PTPFGSTVDE  240
RAGSKTPPLQ GSRSRHLLPK PPKSNLVTGL EPNNVMCSPI RVARPPAEGR GRNQLLPRYW  300
PRITDQELQQ ISMEYPYSLS ANNSNSTIVP LFEKVLSASD AGRIGRLVLP KACAEAYFPP  360
ISQPEGIPLR IQDVKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA GDTVTFSRMD  420
PEGKLVMGFR KASNSFAMQD IQRSPIPNGV HSSESSFSGV FENLPVTSGC CGLLQSLKGS  480
NDAHLSALSK HLQSVGDISW NKTENQEDRT QEGLMLPSML ITERKKAKNI GSKNKRLLMD  540
GQEALELKLT WEEAQDLLRP PPTAKPSIVT IEDYDFEEYD EPPVFGKTSI FIARSTGTQE  600
QWAQCDGCSK WRKLPVDFLL PPQWTCRENA WDQNRNSCSA PDELTPRELE NLLRKNKDFK  660
KRRVTSSKGA AQEAEPSGLD ALANAAILGD MGEPGPSAAV ATTTKHPRHR PGCSCIVCIQ  720
PPSGKGKHKP TCTCNVCMTV KRRFKTLMMR KKKRQSDREA EIAQRNHQLW GGSKDEAETE  780
SSSKAELSTA RIDPVENEAT MVANELERTK SLSNKLAEKW VDIGKGHIDL NCHPDREEDT  840
QAGGVLNLLQ VARFPLESFL NQNRLVGNLA SGKGGSTSHL PAIAVAAATP QEGGGGDGEE  900
QQVAEDCKLD SAVEDGKENN KDEAEETQKA TL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-663014392131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1740751KRRFKTLMMRKK
2740753KRRFKTLMMRKKKR
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
PlantRegMapLus10025226
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_015580570.10.0B3 domain-containing transcription repressor VAL2 isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A2C9VC870.0A0A2C9VC87_MANES; Uncharacterized protein
STRINGLus100252260.0(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]