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 Potri.016G005600.1
Common NamePOPTR_0016s00740g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family NF-YB
Protein Properties Length: 232aa    MW: 25995.9 Da    PI: 6.9653
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.016G005600.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB172.16e-5446142197
               NF-YB   1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyr 91 
                         vreqdrf+Pianv+rim+k+lP ++kis+daket+qecvsefisf+tsea+++cqre+rkti+++d+l+a+++lGf+dy+epl++yl++yr
  Potri.016G005600.1  46 VREQDRFMPIANVIRIMRKMLPPHGKISDDAKETIQECVSEFISFITSEANERCQREQRKTITAEDVLYAMSKLGFDDYIEPLTIYLHRYR 136
                         69***************************************************************************************** PP

               NF-YB  92 elegek 97 
                         elege+
  Potri.016G005600.1 137 ELEGER 142
                         ****97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.108.2E-5242160IPR009072Histone-fold
SuperFamilySSF471134.35E-4049149IPR009072Histone-fold
PfamPF008081.7E-2652116IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.8E-178098No hitNo description
PROSITE patternPS0068508399IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.8E-1799117No hitNo description
PRINTSPR006151.8E-17118136No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 232 aa     Download sequence    Send to blast
MDRGGFHGYR KHANTSSEIN MRLAEINHST TNKFHTTTDD ISECTVREQD RFMPIANVIR  60
IMRKMLPPHG KISDDAKETI QECVSEFISF ITSEANERCQ REQRKTITAE DVLYAMSKLG  120
FDDYIEPLTI YLHRYRELEG ERGSMRGEPL MKTRNSNNNN NVDQYGTLMA GAGAAYAPAF  180
HVSHHHHPHH HGFFGGAPIG AGYMTMRDAN SNASSSHSAA LANVEAFAQH Q*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_A3e-5942137297NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed primarily during seed development. {ECO:0000269|PubMed:12509518}.
UniprotTISSUE SPECIFICITY: Expressed in roots, flowers and developing siliques. Present in etiolated seedlings. {ECO:0000269|PubMed:11250072, ECO:0000269|PubMed:12509518, ECO:0000269|PubMed:17322342}.
Functional Description ? help Back to Top
Source Description
UniProtComponent of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. Plays a role in the regulation of the embryogenesis. Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000269|PubMed:12509518, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.016G005600.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2101290.0AC210129.1 Populus trichocarpa clone POP009-F11, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024442979.11e-126nuclear transcription factor Y subunit B-6
SwissprotQ84W662e-73NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBLB9IH121e-174B9IH12_POPTR; Uncharacterized protein
STRINGPOPTR_0016s00740.11e-174(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF27283279
Representative plantOGRP16817170
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G47670.12e-72nuclear factor Y, subunit B6
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. Kim HU, et al.
    Ectopic overexpression of castor bean LEAFY COTYLEDON2 (LEC2) in Arabidopsis triggers the expression of genes that encode regulators of seed maturation and oil body proteins in vegetative tissues.
    FEBS Open Bio, 2013. 4: p. 25-32
    [PMID:24363987]
  3. Gnesutta N,Saad D,Chaves-Sanjuan A,Mantovani R,Nardini M
    Crystal Structure of the Arabidopsis thaliana L1L/NF-YC3 Histone-fold Dimer Reveals Specificities of the LEC1 Family of NF-Y Subunits in Plants.
    Mol Plant, 2017. 10(4): p. 645-648
    [PMID:27871811]
  4. Li D, et al.
    MYB89 Transcription Factor Represses Seed Oil Accumulation.
    Plant Physiol., 2017. 173(2): p. 1211-1225
    [PMID:27932421]
  5. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  6. Han JD, et al.
    Evolutionary Analysis of the LAFL Genes Involved in the Land Plant Seed Maturation Program.
    Front Plant Sci, 2017. 8: p. 439
    [PMID:28421087]