Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Nuclear transcription factor Y subunit B-9

Gene

NFYB9

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Component 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. Acts as a central regulator of the embryogenesis. Required for the speciation of cotyledon identity and the completion of embryo maturation. Controls seed storage protein genes through the regulation of FUS3 and ABI3. Involved in the blue light (BL) and abscisic acid (ABA) signaling pathways.4 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi64 – 707By similarity

GO - Molecular functioni

GO - Biological processi

  • abscisic acid-activated signaling pathway Source: UniProtKB
  • blue light signaling pathway Source: UniProtKB
  • embryo development ending in seed dormancy Source: TAIR
  • positive regulation of fatty acid biosynthetic process Source: TAIR
  • positive regulation of transcription, DNA-templated Source: TAIR
  • somatic embryogenesis Source: TAIR
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Abscisic acid signaling pathway, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-ATH-2426168. Activation of gene expression by SREBF (SREBP).

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear transcription factor Y subunit B-9
Short name:
AtNF-YB-9
Alternative name(s):
Protein LEAFY COTYLEDON 1
Gene namesi
Name:NFYB9
Synonyms:LEC1
Ordered Locus Names:At1g21970
ORF Names:T26F17.20
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G21970.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Altered response to blue light (BL) and abscisic acid (ABA).1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi85 – 851D → K: Affects function. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 238238Nuclear transcription factor Y subunit B-9PRO_0000204623Add
BLAST

Proteomic databases

PaxDbiQ9SFD8.
PRIDEiQ9SFD8.

Expressioni

Tissue specificityi

Expressed in green siliques. Present in etiolated seedlings.2 Publications

Developmental stagei

Accumulates during seed development in embryo cell types and in endosperm tissue.1 Publication

Gene expression databases

GenevisibleiQ9SFD8. AT.

Interactioni

Subunit structurei

Heterotrimeric transcription factor composed of three components, NF-YA, NF-YB and NF-YC. NF-YB and NF-YC must interact and dimerize for NF-YA association and DNA binding (By similarity). Interacts with PRN1.By similarity1 Publication

Protein-protein interaction databases

BioGridi24039. 11 interactions.
IntActiQ9SFD8. 1 interaction.
STRINGi3702.AT1G21970.1.

Structurei

3D structure databases

ProteinModelPortaliQ9SFD8.
SMRiQ9SFD8. Positions 58-148.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni91 – 10212Subunit association domain (SAD)By similarityAdd
BLAST

Sequence similaritiesi

Belongs to the NFYB/HAP3 subunit family.Curated

Phylogenomic databases

eggNOGiKOG0869. Eukaryota.
COG2036. LUCA.
HOGENOMiHOG000211832.
InParanoidiQ9SFD8.
OMAiINGMPAF.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR003958. CBFA_NFYB_domain.
IPR009072. Histone-fold.
IPR003956. Transcrpt_fac_NFYB/HAP3_CS.
[Graphical view]
PfamiPF00808. CBFD_NFYB_HMF. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00685. NFYB_HAP3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9SFD8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MERGAPFSHY QLPKSISELN LDQHSNNPTP MTSSVVVAGA GDKNNGIVVQ
60 70 80 90 100
QQPPCVAREQ DQYMPIANVI RIMRKTLPSH AKISDDAKET IQECVSEYIS
110 120 130 140 150
FVTGEANERC QREQRKTITA EDILWAMSKL GFDNYVDPLT VFINRYREIE
160 170 180 190 200
TDRGSALRGE PPSLRQTYGG NGIGFHGPSH GLPPPGPYGY GMLDQSMVMG
210 220 230
GGRYYQNGSS GQDESSVGGG SSSSINGMPA FDHYGQYK
Length:238
Mass (Da):26,070
Last modified:May 31, 2011 - v2
Checksum:i7B5444BB1DD0A7EA
GO

Sequence cautioni

The sequence AAC39488.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAF16537.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti17 – 171S → T in BX817269 (PubMed:14993207).Curated
Sequence conflicti36 – 361V → I in AAC39488 (PubMed:9657152).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC013482 Genomic DNA. Translation: AAF16537.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE30179.1.
AB493474 mRNA. Translation: BAH30312.1.
BX817269 mRNA. No translation available.
AF036684 Genomic DNA. Translation: AAC39488.1. Different initiation.
PIRiG86352.
RefSeqiNP_173616.2. NM_102046.4.
UniGeneiAt.28011.

Genome annotation databases

EnsemblPlantsiAT1G21970.1; AT1G21970.1; AT1G21970.
GeneIDi838800.
GrameneiAT1G21970.1; AT1G21970.1; AT1G21970.
KEGGiath:AT1G21970.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC013482 Genomic DNA. Translation: AAF16537.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE30179.1.
AB493474 mRNA. Translation: BAH30312.1.
BX817269 mRNA. No translation available.
AF036684 Genomic DNA. Translation: AAC39488.1. Different initiation.
PIRiG86352.
RefSeqiNP_173616.2. NM_102046.4.
UniGeneiAt.28011.

3D structure databases

ProteinModelPortaliQ9SFD8.
SMRiQ9SFD8. Positions 58-148.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi24039. 11 interactions.
IntActiQ9SFD8. 1 interaction.
STRINGi3702.AT1G21970.1.

Proteomic databases

PaxDbiQ9SFD8.
PRIDEiQ9SFD8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G21970.1; AT1G21970.1; AT1G21970.
GeneIDi838800.
GrameneiAT1G21970.1; AT1G21970.1; AT1G21970.
KEGGiath:AT1G21970.

Organism-specific databases

TAIRiAT1G21970.

Phylogenomic databases

eggNOGiKOG0869. Eukaryota.
COG2036. LUCA.
HOGENOMiHOG000211832.
InParanoidiQ9SFD8.
OMAiINGMPAF.

Enzyme and pathway databases

ReactomeiR-ATH-2426168. Activation of gene expression by SREBF (SREBP).

Miscellaneous databases

PROiQ9SFD8.

Gene expression databases

GenevisibleiQ9SFD8. AT.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR003958. CBFA_NFYB_domain.
IPR009072. Histone-fold.
IPR003956. Transcrpt_fac_NFYB/HAP3_CS.
[Graphical view]
PfamiPF00808. CBFD_NFYB_HMF. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00685. NFYB_HAP3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Efficient yeast one-/two-hybrid screening using a library composed only of transcription factors in Arabidopsis thaliana."
    Mitsuda N., Ikeda M., Takada S., Takiguchi Y., Kondou Y., Yoshizumi T., Fujita M., Shinozaki K., Matsui M., Ohme-Takagi M.
    Plant Cell Physiol. 51:2145-2151(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-235.
  4. "Whole genome sequence comparisons and 'full-length' cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation."
    Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M., Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M., Weissenbach J., Salanoubat M.
    Genome Res. 14:406-413(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 17-238.
    Strain: cv. Columbia.
  5. "Arabidopsis LEAFY COTYLEDON1 is sufficient to induce embryo development in vegetative cells."
    Lotan T., Ohto M.-A., Yee K.M., West M.A.L., Lo R., Kwong R.W., Yamagishi K., Fischer R.L., Goldberg R.B., Harada J.J.
    Cell 93:1195-1205(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 18-238, FUNCTION, DEVELOPMENTAL STAGE.
    Strain: cv. Wassilewskija.
  6. "Regulation of the CCAAT-binding NF-Y subunits in Arabidopsis thaliana."
    Gusmaroli G., Tonelli C., Mantovani R.
    Gene 264:173-185(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY.
  7. "Regulation of novel members of the Arabidopsis thaliana CCAAT-binding nuclear factor Y subunits."
    Gusmaroli G., Tonelli C., Mantovani R.
    Gene 283:41-48(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.
  8. "Arabidopsis LEAFY COTYLEDON1 represents a functionally specialized subunit of the CCAAT binding transcription factor."
    Lee H., Fischer R.L., Goldberg R.B., Harada J.J.
    Proc. Natl. Acad. Sci. U.S.A. 100:2152-2156(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, MUTAGENESIS OF ASP-85.
  9. "LEAFY COTYLEDON1 controls seed storage protein genes through its regulation of FUSCA3 and ABSCISIC ACID INSENSITIVE3."
    Kagaya Y., Toyoshima R., Okuda R., Usui H., Yamamoto A., Hattori T.
    Plant Cell Physiol. 46:399-406(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  10. "The GCR1, GPA1, PRN1, NF-Y signal chain mediates both blue light and abscisic acid responses in Arabidopsis."
    Warpeha K.M., Upadhyay S., Yeh J., Adamiak J., Hawkins S.I., Lapik Y.R., Anderson M.B., Kaufman L.S.
    Plant Physiol. 143:1590-1600(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE, TISSUE SPECIFICITY, INTERACTION WITH PRN1.
    Strain: cv. Columbia and cv. Wassilewskija.

Entry informationi

Entry nameiNFYB9_ARATH
AccessioniPrimary (citable) accession number: Q9SFD8
Secondary accession number(s): C0SUX1, O81130
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 8, 2005
Last sequence update: May 31, 2011
Last modified: February 17, 2016
This is version 100 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.