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 RrC3704_p3
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family NF-YB
Protein Properties Length: 142aa    MW: 14954.6 Da    PI: 4.6898
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3704_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB176.33e-5522115194
       NF-YB   1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrele 94 
                 vreqdr+lPian+srimkk+lP n+ki+kdak+tvqecvsefisf+tseasdkcq+ekrkt+ng+dllwa+atlGfedy+eplkvyl++yre +
  RrC3704_p3  22 VREQDRYLPIANISRIMKKALPPNGKIGKDAKDTVQECVSEFISFITSEASDKCQKEKRKTVNGEDLLWAMATLGFEDYLEPLKVYLARYREGD 115
                 69*****************************************************************************************965 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.101.5E-5220128IPR009072Histone-fold
SuperFamilySSF471134.5E-4025129IPR009072Histone-fold
PfamPF008087.2E-282892IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.0E-215674No hitNo description
PROSITE patternPS0068505975IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.0E-217593No hitNo description
PRINTSPR006151.0E-2194112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009414Biological Processresponse to water deprivation
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 142 aa     Download sequence    Send to blast
MADAPPSPAG DGGESGGGGG SVREQDRYLP IANISRIMKK ALPPNGKIGK DAKDTVQECV  60
SEFISFITSE ASDKCQKEKR KTVNGEDLLW AMATLGFEDY LEPLKVYLAR YREGDNKGSG  120
KSGDGSNRDA AGGGAPGEDM PV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_B6e-4921113294NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A6e-4921113294NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
Search in ModeBase
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.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00300DAPTransfer from AT2G38880Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532481e-111AK353248.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-P17.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001189704.11e-87nuclear factor Y, subunit B1
SwissprotQ9SLG09e-87NFYB1_ARATH; Nuclear transcription factor Y subunit B-1
TrEMBLA0A087H3T94e-88A0A087H3T9_ARAAL; Nuclear transcription factor y subunit b-1
STRINGA0A087H3T96e-89(Arabis alpina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM14802794
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G38880.72e-69nuclear factor Y, subunit B1