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 KFK24682.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family B3
Protein Properties Length: 782aa    MW: 86475.1 Da    PI: 7.9416
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK24682.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.72.1e-18290389198
                 EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                 f+kvl+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++lv++
  KFK24682.1 290 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLKIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRTE-PEGKLVMG 386
                 99**************************555566778***************9989999999***9.********************654.77777777 PP

                 EE- CS
          B3  96 vfr 98 
                  ++
  KFK24682.1 387 YRK 389
                 665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.1E-30284393IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.06E-20287389IPR015300DNA-binding pseudobarrel domain
CDDcd100171.67E-22288389No hitNo description
SMARTSM010194.9E-20290390IPR003340B3 DNA binding domain
PROSITE profilePS5086311.053290391IPR003340B3 DNA binding domain
PfamPF023621.4E-15290389IPR003340B3 DNA binding domain
PROSITE profilePS5105014.758519569IPR011124Zinc finger, CW-type
PfamPF074963.8E-13524566IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 782 aa     Download sequence    Send to blast
MMESTTKVCM NAQCGAPSTS GDWKRGWPMR SGQFAPLCVK CGSAYEQSIF CQLFHAEEPG  60
WRQCHSCDKR LHCGCIASRF MMELLDNGGV TCITCAKKSG FFSINETNGK LENGARELPS  120
FASPEHLGHV LDRTSLKHLL HFQRISPTQS FLHLKQEDNP LLPARLDALR HKTENHEFHP  180
NLSISLGPTL MTSPFHDASV DDTSRNIPIF QLAPRSRQLL PKPANSAPTA PGMDPNGSLV  240
SQIHVARPPP EGRGKTQLLP RYWPRITDQE LQQLSGQYPH LSNSKIVPLF EKVLSASDAG  300
RIGRLVLPKA CAEAYFPPIS QPEGLPLKIQ DIKGKEWVFQ FRFWPNNNSR MYVLEGVTPC  360
IQSMQLQAGD TVTFSRTEPE GKLVMGYRKA TNTTAAQMFK GSSEPNLNMF SNNLNPGCGD  420
INWSKLEKSE DMAKDHLLLQ SSQIPARKRA RNIGSKSKRL LIDSVDVLEL RLTWEEAQEL  480
LRPPPSAKPS IFTVEDHDFE EYDEPPVFGK RTVFVSRQAG EQEQWVQCDA CGKWRRLPVD  540
TLLPPKWLCS DNLLDPARSS CSAPDELSPR EQDALVRLNK EFKRRRLASS NQEASALNTL  600
ANAAITTTGE QGDIVVAATT KHPRHRAGCS CIVCSQPPSG KGKHKPSCTC TVCEAVKRRF  660
KTLMMRKRNR GEAGQASQQT QSECRDETEV ESIPLVEPAA GGNIDLNSDP GASRVSMMSL  720
LQAATFPLEA YLKQKAMSNT TTPPPTAAVE QQSSDMVSTE HGSSSAAQEP ERDTSGAPEP  780
LS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A2e-662643972131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1582586KRRRL
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
PlantRegMapKFK24682.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2065540.0AB206554.1 Arabidopsis thaliana HSI2-L1 mRNA for transcription factor B3-EAR motif family, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010447451.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
RefseqXP_010447452.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A087G4800.0A0A087G480_ARAAL; Uncharacterized protein
STRINGA0A087G4800.0(Arabis alpina)
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]