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 XP_013592945.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family B3
Protein Properties Length: 743aa    MW: 82442.5 Da    PI: 7.9017
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013592945.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.81.9e-18282381198
                     EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                     f+kvl+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++
  XP_013592945.1 282 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLKIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRTE-PEGK 374
                     99**************************555566778***************9989999999***9.********************654.7777 PP

                     .EEEEE- CS
              B3  92 lvvkvfr 98 
                     lv++ ++
  XP_013592945.1 375 LVMGYRK 381
                     7777665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.8E-30277385IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.23E-20279382IPR015300DNA-binding pseudobarrel domain
CDDcd100171.49E-22280381No hitNo description
SMARTSM010194.9E-20282382IPR003340B3 DNA binding domain
PROSITE profilePS5086311.053282383IPR003340B3 DNA binding domain
PfamPF023621.3E-15282381IPR003340B3 DNA binding domain
PROSITE profilePS5105014.874511561IPR011124Zinc finger, CW-type
PfamPF074961.4E-12516558IPR011124Zinc 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: 743 aa     Download sequence    Send to blast
MESTKVCMNA QCGSTSTSGE WKRGWSMRSG ELASLCDKCG SAYEQSIFCQ VFHAEESGWR  60
ECNSCDKRLH CGCIASRFMM ELVDNGGVTC ITCAKKSGLF SMNVESNGRE FPTFASAEHV  120
SSVLERTNLN HLLHFQRISP TQPFLQMKQE ESLLPARLEA LRHNTEKKES AQPNLSISLG  180
PTLMTSQFHD VDDRSKTTPI FQLASRSRQL LPKPANSAPT TAPPMEPNGS LVSQIHVARP  240
PPEGRGKTQL LPRYWPRITD QELQQLSGQY PHLSNSKIIP LFEKVLSASD AGRIGRLVLP  300
KACAEAYFPP ISQPEGLPLK IQDIKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA  360
GDTVTFSRTE PEGKLVMGYR KATNSTAAQM FKGSSEPNLN MFSNNLSSGC GDINWSKLDK  420
SDDMSKDGLM LQPSLISARK RVRNIGTKSK RLLIDSVDVL ELRLTWEEAQ ELLRPPQSAK  480
PSICTVEDHD FEEYDEPPVF GKRTVFVSRQ TGEQEQWVQC DACAKWRRLP VDTLLPPKWL  540
CSDNVLDPSR SSCSAPDELT PREQDTLLRL SKEFKRRRLA SSNQEAASAL DTLANAAITT  600
TGEQGETEVA ATTKHPRHRA GCSCIVCSQP PSGKGKHKPS CTCTVCEAVK RRFKTLMMRK  660
RNRGETGQAS QQAQSDQCRE ETEAESIPAV ELPAAGGNID LNSDPASRVS MMSLLQAATF  720
PLEVYLKQKG VPNTAGEQQS SEV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A9e-672563892131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1574578KRRRL
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
PlantRegMapXP_013592945.1
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_013599014.10.0PREDICTED: B3 domain-containing transcription repressor VAL2-like isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A0D3DHA90.0A0A0D3DHA9_BRAOL; Uncharacterized protein
TrEMBLA0A3P6F8U40.0A0A3P6F8U4_BRAOL; Uncharacterized protein
STRINGBo7g115570.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72032639
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]