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 Rsa1.0_00690.1_g00015.1
Organism
Raphanus sativus
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: 132aa    MW: 15075 Da    PI: 5.7214
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00690.1_g00015.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB161.21.5e-50294294
                    NF-YB  2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkk 89
                              ++dr+lPianv+r+mk++lP+nakisk+ak+tvqec++efisfvt+easdkc+re+rkt+ngdd++wal+tlG+++y++++  yl+k
  Rsa1.0_00690.1_g00015.1  2 ADEDRLLPIANVGRLMKQILPSNAKISKEAKQTVQECATEFISFVTCEASDKCHRENRKTVNGDDIWWALSTLGLDNYADAVGRYLHK 89
                             589************************************************************************************* PP

                    NF-YB 90 yrele 94
                             yre  
  Rsa1.0_00690.1_g00015.1 90 YREKR 94
                             **964 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.105.1E-473110IPR009072Histone-fold
SuperFamilySSF471134.84E-374112IPR009072Histone-fold
PfamPF008089.8E-26771IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006151.7E-163553No hitNo description
PROSITE patternPS0068503854IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006151.7E-165472No hitNo description
PRINTSPR006151.7E-167391No 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: 132 aa     Download sequence    Send to blast
MADEDRLLPI ANVGRLMKQI LPSNAKISKE AKQTVQECAT EFISFVTCEA SDKCHRENRK  60
TVNGDDIWWA LSTLGLDNYA DAVGRYLHKY REKRERAENN KSSNDSGNER EPNLLLVEIN  120
LCDLNHVLLK DL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4g91_B6e-40192192Transcription factor HapC (Eurofung)
4g92_B6e-40192192Transcription factor HapC (Eurofung)
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
MP00133DAPTransfer from AT1G09030Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00690.1_g00015.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934431e-111AB493443.1 Arabidopsis thaliana At1g09030 gene for hypothetical protein, partial cds, clone: RAAt1g09030.
GenBankBT0293631e-111BT029363.1 Arabidopsis thaliana At1g09030 mRNA, complete cds.
GenBankCP0026841e-111CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBankF7G191e-111AC000106.1 Sequence of BAC F7G19 from Arabidopsis thaliana chromosome 1, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009148158.11e-78PREDICTED: nuclear transcription factor Y subunit B-4
RefseqXP_013646457.11e-78nuclear transcription factor Y subunit B-4-like
RefseqXP_013710807.11e-78nuclear transcription factor Y subunit B-4-like
RefseqXP_018493457.11e-78PREDICTED: nuclear transcription factor Y subunit B-4
SwissprotO040271e-73NFYB4_ARATH; Nuclear transcription factor Y subunit B-4
TrEMBLA0A397YUN03e-77A0A397YUN0_BRACM; Uncharacterized protein
TrEMBLM4DPZ43e-77M4DPZ4_BRARP; Uncharacterized protein
STRINGBra018585.1-P4e-78(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25528229
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09030.15e-76nuclear factor Y, subunit B4
Publications ? help Back to Top
  1. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]