NFYB1_CAEEL
ID NFYB1_CAEEL Reviewed; 403 AA.
AC O17286; A0A0M7RFF4;
DT 17-JUN-2020, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 03-AUG-2022, entry version 156.
DE RecName: Full=Nuclear transcription factor Y subunit nfyb-1 {ECO:0000305};
DE AltName: Full=CAAT box DNA-binding protein subunit nfyb-1 {ECO:0000305};
GN Name=nfyb-1 {ECO:0000312|WormBase:W10D9.4a};
GN ORFNames=W10D9.4 {ECO:0000312|WormBase:W10D9.4a};
OS Caenorhabditis elegans.
OC Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
OC Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae;
OC Caenorhabditis.
OX NCBI_TaxID=6239 {ECO:0000312|Proteomes:UP000001940};
RN [1] {ECO:0000312|Proteomes:UP000001940}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Bristol N2 {ECO:0000312|Proteomes:UP000001940};
RX PubMed=9851916; DOI=10.1126/science.282.5396.2012;
RG The C. elegans sequencing consortium;
RT "Genome sequence of the nematode C. elegans: a platform for investigating
RT biology.";
RL Science 282:2012-2018(1998).
RN [2] {ECO:0000305}
RP SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND DEVELOPMENTAL STAGE.
RX PubMed=15704008; DOI=10.1007/s10735-004-6017-6;
RA Franchini A., Imbriano C., Peruzzi E., Mantovani R., Ottaviani E.;
RT "Expression of the CCAAT-binding factor NF-Y in Caenorhabditis elegans.";
RL J. Mol. Histol. 36:139-145(2005).
RN [3] {ECO:0000305}
RP FUNCTION, IDENTIFICATION IN NF-Y COMPLEX, INTERACTION WITH NFYC-1; NFYA-1
RP AND NFYA-2, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE, AND DISRUPTION
RP PHENOTYPE.
RX PubMed=17574230; DOI=10.1016/j.ydbio.2007.05.021;
RA Deng H., Sun Y., Zhang Y., Luo X., Hou W., Yan L., Chen Y., Tian E.,
RA Han J., Zhang H.;
RT "Transcription factor NFY globally represses the expression of the C.
RT elegans Hox gene Abdominal-B homolog egl-5.";
RL Dev. Biol. 308:583-592(2007).
RN [4] {ECO:0000305}
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=23933492; DOI=10.1016/j.ydbio.2013.08.001;
RA Milton A.C., Packard A.V., Clary L., Okkema P.G.;
RT "The NF-Y complex negatively regulates Caenorhabditis elegans tbx-2
RT expression.";
RL Dev. Biol. 382:38-47(2013).
RN [5] {ECO:0000305}
RP FUNCTION.
RX PubMed=25873636; DOI=10.1534/g3.115.018101;
RA Milton A.C., Okkema P.G.;
RT "Caenorhabditis elegans TBX-2 Directly Regulates Its Own Expression in a
RT Negative Autoregulatory Loop.";
RL G3 (Bethesda) 5:1177-1186(2015).
CC -!- FUNCTION: Component of sequence-specific heterotrimeric transcription
CC factor (nfya-1-NF-Y and nfya-2-NF-Y) complexes which specifically
CC recognize a 5'-CCAAT-3' box motif found in the promoters of its target
CC genes to regulate their expression and control cellular identity in
CC particular tissue types (PubMed:17574230). In association with the
CC components in the NF-Y complexes, represses the expression of the T-box
CC transcription factor tbx-2 throughout larval development, which most
CC likely restricts its expression to certain tissues (PubMed:23933492,
CC PubMed:25873636). May act to repress txb-2 expression in conjunction
CC with tbx-2 itself, which has an autoregulatory role (PubMed:25873636).
CC In association with the components in the nfya-1-NF-Y complex,
CC negatively regulates the expression of the homeobox protein egl-5 to
CC spatially restrict its expression in tissues such as the head
CC (PubMed:17574230). May regulate spatial egl-5 expression in association
CC with the mes-2-mes-3-mes-6 complex (PubMed:17574230).
CC {ECO:0000269|PubMed:17574230, ECO:0000269|PubMed:23933492,
CC ECO:0000269|PubMed:25873636}.
CC -!- SUBUNIT: Forms two NF-Y heterotrimeric transcription factor complexes:
CC the nfya-1-NF-Y complex is composed of nfya-1, nfyb-1 and nfyc-1, and
CC the nfya-2-NF-Y complex is composed of nfya-2, nfyb-1 and nfyc-1
CC (PubMed:17574230). Interacts with nfyc-1; the interaction is direct and
CC is required for the interaction with either nfya-1 or nfya-2, and
CC subsequent binding of the complex to the 5'-CCAAT-3' box motif in DNA
CC (PubMed:17574230). {ECO:0000269|PubMed:17574230}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:17574230}. Cytoplasm
CC {ECO:0000269|PubMed:15704008, ECO:0000269|PubMed:17574230}. Perikaryon
CC {ECO:0000269|PubMed:15704008}. Note=Localizes to the cytoplasm of
CC secretory cells and cell bodies of the small ganglia surrounding the
CC pharynx. {ECO:0000269|PubMed:15704008}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=a {ECO:0000312|WormBase:W10D9.4a};
CC IsoId=O17286-1; Sequence=Displayed;
CC Name=b {ECO:0000312|WormBase:W10D9.4b};
CC IsoId=O17286-2; Sequence=VSP_060606;
CC -!- TISSUE SPECIFICITY: Expressed in certain parts of the gonads with high
CC expression in fertilized oocytes in the uterus and mature oocytes from
CC the distal to the proximal arm of the gonad, but weak expression in the
CC syncytial ovaries and immature oocytes at the beginning of the proximal
CC arm of the gonad (PubMed:15704008). Expressed in secretory cells in the
CC pharyngeal terminal bulb wall, in the small ganglia surrounding the
CC pharynx and in the neurons running anteriorly to the sensory organs in
CC the head (PubMed:15704008). Not expressed in the intestine, the
CC hypodermis or body wall muscle surrounding the pseudocoelomic space
CC (PubMed:15704008). {ECO:0000269|PubMed:15704008}.
CC -!- DEVELOPMENTAL STAGE: Expressed in cells of the developing embryo
CC (PubMed:15704008, PubMed:17574230). At the larval stages, weakly
CC expressed in neurons and pharyngeal secretory cells (PubMed:15704008,
CC PubMed:17574230). At larval stages also expressed in the developing
CC hermaphrodite vulva and male tail (PubMed:17574230). Not expressed in
CC the gonads in larval stages (PubMed:15704008).
CC {ECO:0000269|PubMed:15704008, ECO:0000269|PubMed:17574230}.
CC -!- DISRUPTION PHENOTYPE: RNAi-mediated knockdown results in ectopic
CC expression of the homeobox protein egl-5 in the head region
CC (PubMed:17574230). RNAi-mediated knockdown results in ectopic
CC expression of tbx-2 in the gut and seam cells of L4 stage larvae and
CC adults (PubMed:23933492). RNAi-mediated knockdown enhances the larval
CC lethality phenotype of the tbx-2 bx59 mutant (PubMed:23933492).
CC {ECO:0000269|PubMed:17574230, ECO:0000269|PubMed:23933492}.
CC -!- SIMILARITY: Belongs to the NFYB/HAP3 subunit family. {ECO:0000305}.
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DR EMBL; BX284602; CCD65581.1; -; Genomic_DNA.
DR EMBL; BX284602; CUR29996.1; -; Genomic_DNA.
DR PIR; E88021; E88021.
DR RefSeq; NP_001303801.1; NM_001316872.1. [O17286-2]
DR RefSeq; NP_493740.1; NM_061339.4. [O17286-1]
DR AlphaFoldDB; O17286; -.
DR SMR; O17286; -.
DR ComplexPortal; CPX-5666; CCAAT-binding factor complex, nfya-1 variant.
DR ComplexPortal; CPX-5667; CCAAT-binding factor complex, nfya-2 variant.
DR DIP; DIP-25261N; -.
DR IntAct; O17286; 14.
DR STRING; 6239.W10D9.4; -.
DR EPD; O17286; -.
DR PaxDb; O17286; -.
DR PeptideAtlas; O17286; -.
DR EnsemblMetazoa; W10D9.4a.1; W10D9.4a.1; WBGene00021132. [O17286-1]
DR EnsemblMetazoa; W10D9.4b.1; W10D9.4b.1; WBGene00021132. [O17286-2]
DR GeneID; 173435; -.
DR KEGG; cel:CELE_W10D9.4; -.
DR UCSC; W10D9.4; c. elegans. [O17286-1]
DR CTD; 173435; -.
DR WormBase; W10D9.4a; CE14792; WBGene00021132; nfyb-1. [O17286-1]
DR WormBase; W10D9.4b; CE51090; WBGene00021132; nfyb-1. [O17286-2]
DR eggNOG; KOG0869; Eukaryota.
DR GeneTree; ENSGT00940000165114; -.
DR HOGENOM; CLU_683769_0_0_1; -.
DR InParanoid; O17286; -.
DR OrthoDB; 1529111at2759; -.
DR PRO; PR:O17286; -.
DR Proteomes; UP000001940; Chromosome II.
DR Bgee; WBGene00021132; Expressed in germ line (C elegans) and 4 other tissues.
DR ExpressionAtlas; O17286; baseline and differential.
DR GO; GO:0016602; C:CCAAT-binding factor complex; IPI:ComplexPortal.
DR GO; GO:0005737; C:cytoplasm; IDA:UniProtKB.
DR GO; GO:0043204; C:perikaryon; IDA:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0001228; F:DNA-binding transcription activator activity, RNA polymerase II-specific; IEA:InterPro.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR GO; GO:0001217; F:DNA-binding transcription repressor activity; IMP:UniProtKB.
DR GO; GO:0046982; F:protein heterodimerization activity; IEA:InterPro.
DR GO; GO:0010468; P:regulation of gene expression; IMP:UniProtKB.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0009888; P:tissue development; IMP:UniProtKB.
DR Gene3D; 1.10.20.10; -; 1.
DR InterPro; IPR003958; CBFA_NFYB_domain.
DR InterPro; IPR009072; Histone-fold.
DR InterPro; IPR027113; Transc_fact_NFYB/HAP3.
DR PANTHER; PTHR11064; PTHR11064; 1.
DR Pfam; PF00808; CBFD_NFYB_HMF; 1.
DR SUPFAM; SSF47113; SSF47113; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Cytoplasm; DNA-binding; Nucleus; Reference proteome;
KW Repressor; Transcription; Transcription regulation.
FT CHAIN 1..403
FT /note="Nuclear transcription factor Y subunit nfyb-1"
FT /id="PRO_0000450334"
FT REGION 318..403
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 327..352
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 362..376
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..74
FT /note="Missing (in isoform b)"
FT /evidence="ECO:0000305"
FT /id="VSP_060606"
SQ SEQUENCE 403 AA; 46062 MW; 72724FFCD9DA89FF CRC64;
MDPKPINEGM LLEDHDHGMP EEEEITEDDM NGIHNIEEDT RTISEIAMEL HHPNKSQVLL
DQERFLPIAN VVRIMKTQMD PQAKLAKDAK ECAQECVSEF ISFIASEAAE ICNITKRKTI
TADDLLTAME ATGFDNYAEP MRIFLQKYRQ AHKITGPIHR THPDYVRPPQ FQMDPFVRPL
FFDTEQGRRC TETQYVINGS EIVKNAPLGE EWNEQTGTLN TRADGYYMEE PMEPMPMEEV
EIEEHEEIIE QDSLGAIALE QQGQMQIYVD PKTKQHFAAK ETPNGMELYP LIIQDTPLQL
ENVSGPNQFV MNMPDGRAIP HGMGQEEPQP VSSSSVMRKI GQNPSSYAQQ HHHVSHVEQH
DDVEYEEEEE VDQVEEDTVP VPIAPRPAAT RVQPKRTPTK RKK
