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 Csa11g011280.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family B3
Protein Properties Length: 781aa    MW: 86067.3 Da    PI: 7.7431
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa11g011280.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.72.1e-18289388198
                     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++
  Csa11g011280.1 289 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLKIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRTE-PEGK 381
                     99**************************555566778***************9989999999***9.********************654.7777 PP

                     .EEEEE- CS
              B3  92 lvvkvfr 98 
                     lv++ ++
  Csa11g011280.1 382 LVMGYRK 388
                     7777665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.1E-30284393IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.36E-20286389IPR015300DNA-binding pseudobarrel domain
CDDcd100171.66E-22287388No hitNo description
SMARTSM010194.9E-20289389IPR003340B3 DNA binding domain
PROSITE profilePS5086311.053289390IPR003340B3 DNA binding domain
PfamPF023621.3E-15289388IPR003340B3 DNA binding domain
PROSITE profilePS5105014.8518568IPR011124Zinc finger, CW-type
PfamPF074963.8E-13523565IPR011124Zinc 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: 781 aa     Download sequence    Send to blast
MESTKVCMNA LCGAVSTSGE WKKGWPMRSG DLASLCDKCG SAYEQSIFCQ VFHAEESGWR  60
ECTSCDKRLH CGCIASRFMM ELLDNGSVTC ISCAKKSALF SMNVSQESNG RDLSSFASPE  120
HVGSVLERTN LKHLLHFQRI GSTQSSLQMK QEESLLRSRL DALRHKTERK ELQELSAQPN  180
LSISLGPTLM SSPFHDAVVD DRSKATSIFQ LAPRSRQLLP KPANSAPTAA GMEPNGSLVS  240
QIHVARPPPE GRGKTQLLPR YWPRITDQEL QQLSGQYPHL SNSKIIPLFE KVLSASDAGR  300
IGRLVLPKAC AEAYFPPISQ PEGLPLKIQD IKGKEWVFQF RFWPNNNSRM YVLEGVTPCI  360
QSMQLQAGDT VTFSRTEPEG KLVMGYRKAT NSTATQMFKG SNEPNLNMFS NNLNPGCGDI  420
NWSKLEKTED MGKDNLFLQS SLTSARKRVR NIGTKSKRLL IDSVDVLELK VTWDEAQELL  480
RPPQSAKPSI VTLEDQDFEE YDEPPVFGKK TVFVSRQTGE QEQWVQCDAC GKWRRLPVDT  540
LLPPKWLCSD NLLDPARSSC SAPDELSPRE HDTLVRQSKE FKRRRMASTN EKLNQAQEAS  600
AAETLANAGI TTTGEQGEIA VAATTKHPRH RAGCSCIVCS QPPSGKGKHK PTCTCTVCEA  660
VKRRFRTLMM RKRSRGEAGQ ASQQAQSESR DETEVESIPA VEPAAGENID LNSDPGASRV  720
SMMSLLQAAA FPLEAYLKQK AVSNTAGEQQ SSDMVSTEHG SSSAAQEQDK DTNGAQEPVS  780
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A7e-672633962131B3 domain-containing transcription repressor VAL1
Search in ModeBase
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
PlantRegMapCsa11g011280.1
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_010437965.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
RefseqXP_010437966.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
RefseqXP_010437967.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLR0F3W50.0R0F3W5_9BRAS; Uncharacterized protein
STRINGXP_010437965.10.0(Camelina sativa)
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]