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 Lus10025142
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: 102543 Da    PI: 7.3965
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10025142genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.23e-18332431299
                  EEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
           B3   2 fkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                  +kvl+ sd+++ grlvlpk +ae++   ++++e++ l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++lv++
  Lus10025142 332 LKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGIPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-PEGKLVMG 427
                  699************************666778899***************9989999999***9.********************876.77778887 PP

                  EE-S CS
           B3  96 vfrk 99 
                  ++++
  Lus10025142 428 FRKA 431
                  7765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086310.63331432IPR003340B3 DNA binding domain
SuperFamilySSF1019361.83E-18331430IPR015300DNA-binding pseudobarrel domain
SMARTSM010195.2E-20331432IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.0E-27332432IPR015300DNA-binding pseudobarrel domain
PfamPF023629.0E-16332431IPR003340B3 DNA binding domain
CDDcd100173.99E-21333430No hitNo description
PROSITE profilePS5105013.918595645IPR011124Zinc finger, CW-type
PfamPF074961.7E-11600642IPR011124Zinc 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: 933 aa     Download sequence    Send to blast
MASKTCMNAL CGASTSSGWR KGWGLRSGEF AHLCDKCGSA YEQSIFCEVF HSKDSGWREC  60
SSCGKRLHCG CIASRLLLEL LDGGGINCIT CARSSGLIPV GANRKPNGFT KSRIDDIMEM  120
QFTSVENGMD VDRSLLQLGS NTESIGARQL LQLHGDDTKA SFRQMKQEAM LSHIGEIGGT  180
SFSHFNQMSN TFSQAAKPEI NRATMGAKDL YDSLANIALG SSLGNPTPFG SAVDERTGSK  240
TPPLQGSRSR HLLPKPPKSN LVTGLEPNNA MGSPIRVARP PAEGRGRNQL LPRYWPRITD  300
QELQQISMEY PHSLSANKFF VSFVTYEFGV CLKVLSASDA GRIGRLVLPK ACAEAYFPPI  360
SQPEGIPLRI QDVKGKEWVF QFRFWPNNNS RMYVLEGVTP CIQSMQLQAG DTVTFSRMDP  420
EGKLVMGFRK ASNSFAMQDI QHSPIPNGVH SSESSFSGVF ENLLVTSGYC GLLQSLKGSN  480
DAHLSALSKH LPSVGDISWN KSENQEDRTQ EGLMLQSMLI TERKQAKNIG SKNKRLLMDV  540
QEALELKLTW EEAQDLLRPP PTAKPSIVTI EDYDFEEYDE PPVFGKTSIF VARSTGTQEQ  600
WAQCDGCSKW RKLPVDFLLP PQWTCRENAW DQNRNSCSAP DELTLRELEN LLRKNKDFKK  660
RRVTSRQGAA QEAEPSGLDA LANAAILGDM GEPGPSAAVA TTTKHPRHRP GCSCIVCIQP  720
PSGKGKHKPT CTCNVCMTVK RRFKTLMMRK KKRQSDREAE IAQRNQQLWG GSKDEAETDS  780
SSKAELSTAR IDPIENEATM VANELERTKS LSNKLAEKWV DNGKGHIDLN CHPDREEDIQ  840
AGSQSTILNL LQVASLPMEE YLKQNRLVRS LPSEEEGSST SHLPAIAVAA ATPQEGGGGG  900
GKEQVVAEDC KAVEDGKENM KVETEETQKA TL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A2e-592964382131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1739750KRRFKTLMMRKK
2739752KRRFKTLMMRKKKR
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
PlantRegMapLus10025142
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
STRINGLus100251420.0(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]