IFA1_CAEEL
ID IFA1_CAEEL Reviewed; 575 AA.
AC P90901; G5ECT5; Q0G822; Q17599; Q20141; Q8MLX8;
DT 26-APR-2004, integrated into UniProtKB/Swiss-Prot.
DT 26-APR-2004, sequence version 2.
DT 03-AUG-2022, entry version 153.
DE RecName: Full=Intermediate filament protein ifa-1;
DE AltName: Full=Cel IF A1;
DE AltName: Full=Intermediate filament protein A1;
DE Short=IF-A1;
GN Name=ifa-1; ORFNames=F38B2.1;
OS Caenorhabditis elegans.
OC Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
OC Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae;
OC Caenorhabditis.
OX NCBI_TaxID=6239;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA], AND ALTERNATIVE SPLICING.
RC STRAIN=Bristol N2;
RX PubMed=8013462; DOI=10.1002/j.1460-2075.1994.tb06553.x;
RA Dodemont H., Riemer D., Ledger T.N., Weber K.;
RT "Eight genes and alternative RNA processing pathways generate an
RT unexpectedly large diversity of cytoplasmic intermediate filament proteins
RT in the nematode Caenorhabditis elegans.";
RL EMBO J. 13:2625-2638(1994).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], AND ALTERNATIVE SPLICING.
RC STRAIN=Bristol N2;
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 [3]
RP FUNCTION, SUBCELLULAR LOCATION, AND TISSUE SPECIFICITY.
RX PubMed=11427699; DOI=10.1073/pnas.121169998;
RA Karabinos A., Schmidt H., Harborth J., Schnabel R., Weber K.;
RT "Essential roles for four cytoplasmic intermediate filament proteins in
RT Caenorhabditis elegans development.";
RL Proc. Natl. Acad. Sci. U.S.A. 98:7863-7868(2001).
RN [4]
RP TISSUE SPECIFICITY, ALTERNATIVE SPLICING (ISOFORMS C AND D), AND
RP INTERACTION WITH IFB-1 AND IFA-4.
RX PubMed=14529618; DOI=10.1016/j.jmb.2003.08.041;
RA Karabinos A., Schulze E., Schuenemann J., Parry D.A.D., Weber K.;
RT "In vivo and in vitro evidence that the four essential intermediate
RT filament (IF) proteins A1, A2, A3 and B1 of the nematode Caenorhabditis
RT elegans form an obligate heteropolymeric IF system.";
RL J. Mol. Biol. 333:307-319(2003).
RN [5]
RP FUNCTION, AND TISSUE SPECIFICITY.
RX PubMed=15540462; DOI=10.1078/0171-9335-00407;
RA Karabinos A., Schunemann J., Weber K.;
RT "Most genes encoding cytoplasmic intermediate filament (IF) proteins of the
RT nematode Caenorhabditis elegans are required in late embryogenesis.";
RL Eur. J. Cell Biol. 83:457-468(2004).
CC -!- FUNCTION: Cytoplasmic intermediate filaments make up the structural
CC component of the cytoskeleton providing mechanical strength to cells.
CC Essential protein required during embryogenesis especially for survival
CC past the L1 larva stage, involved in intestine morphogenesis.
CC {ECO:0000269|PubMed:11427699, ECO:0000269|PubMed:15540462}.
CC -!- SUBUNIT: Forms some heteromeric filaments with ifb-1.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:11427699}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=4;
CC Name=a; Synonyms=a1-M;
CC IsoId=P90901-1; Sequence=Displayed;
CC Name=b;
CC IsoId=P90901-2; Sequence=VSP_010144;
CC Name=c; Synonyms=a1-L, A1a;
CC IsoId=P90901-3; Sequence=VSP_010145;
CC Name=d; Synonyms=a1-H, A1b;
CC IsoId=P90901-4; Sequence=VSP_010146;
CC -!- TISSUE SPECIFICITY: Isoform d is abundantly expressed in the marginal
CC cells of the pharynx, forming apicobasally oriented thick filament
CC bundles that are attached to the apical and basal plasma membrane by
CC hemi-adherens junctions. Expression of isoform c is also seen in the
CC excretory cells and in the uterus. Isoform c is detectable in the
CC amphid sensory neurins and the pharyngeal-intestinal valve. Both
CC isoform c and isoform d are expressed in the rectum and vulva and in
CC some neurons of the tail. In larvae, expression is seen in the
CC excretory cell, the vulva, the rectum and in the thick filament bundles
CC of the pharynx. Expression in pharynx begins in late embryos.
CC {ECO:0000269|PubMed:11427699, ECO:0000269|PubMed:14529618,
CC ECO:0000269|PubMed:15540462}.
CC -!- SIMILARITY: Belongs to the intermediate filament family.
CC {ECO:0000255|PROSITE-ProRule:PRU01188}.
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DR EMBL; X70834; CAA50182.1; -; Genomic_DNA.
DR EMBL; Z50045; CAA90365.3; -; Genomic_DNA.
DR EMBL; Z73423; CAA90365.3; JOINED; Genomic_DNA.
DR EMBL; Z50045; CAD44129.1; -; Genomic_DNA.
DR EMBL; Z73423; CAD44129.1; JOINED; Genomic_DNA.
DR EMBL; Z50045; CAL36494.1; -; Genomic_DNA.
DR EMBL; Z73423; CAL36494.1; JOINED; Genomic_DNA.
DR EMBL; Z50045; CBI83234.1; -; Genomic_DNA.
DR EMBL; Z73423; CBI83234.1; JOINED; Genomic_DNA.
DR PIR; T18872; T18872.
DR RefSeq; NP_001076764.1; NM_001083295.2. [P90901-3]
DR RefSeq; NP_001257139.1; NM_001270210.1. [P90901-4]
DR RefSeq; NP_741902.1; NM_171777.5. [P90901-1]
DR RefSeq; NP_741903.1; NM_171778.3. [P90901-2]
DR AlphaFoldDB; P90901; -.
DR SMR; P90901; -.
DR BioGRID; 46226; 22.
DR DIP; DIP-25729N; -.
DR IntAct; P90901; 10.
DR MINT; P90901; -.
DR STRING; 6239.F38B2.1d; -.
DR iPTMnet; P90901; -.
DR EPD; P90901; -.
DR PaxDb; P90901; -.
DR PeptideAtlas; P90901; -.
DR PRIDE; P90901; -.
DR EnsemblMetazoa; F38B2.1a.1; F38B2.1a.1; WBGene00002050. [P90901-1]
DR EnsemblMetazoa; F38B2.1b.1; F38B2.1b.1; WBGene00002050. [P90901-2]
DR EnsemblMetazoa; F38B2.1c.1; F38B2.1c.1; WBGene00002050. [P90901-3]
DR EnsemblMetazoa; F38B2.1d.1; F38B2.1d.1; WBGene00002050. [P90901-4]
DR GeneID; 181316; -.
DR KEGG; cel:CELE_F38B2.1; -.
DR UCSC; F38B2.1c.4; c. elegans.
DR CTD; 181316; -.
DR WormBase; F38B2.1a; CE31506; WBGene00002050; ifa-1. [P90901-1]
DR WormBase; F38B2.1b; CE31507; WBGene00002050; ifa-1. [P90901-2]
DR WormBase; F38B2.1c; CE05824; WBGene00002050; ifa-1. [P90901-3]
DR WormBase; F38B2.1d; CE24961; WBGene00002050; ifa-1. [P90901-4]
DR eggNOG; KOG0977; Eukaryota.
DR InParanoid; P90901; -.
DR OMA; HIQRQST; -.
DR OrthoDB; 701388at2759; -.
DR PhylomeDB; P90901; -.
DR SignaLink; P90901; -.
DR PRO; PR:P90901; -.
DR Proteomes; UP000001940; Chromosome X.
DR Bgee; WBGene00002050; Expressed in larva and 3 other tissues.
DR ExpressionAtlas; P90901; baseline and differential.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0005882; C:intermediate filament; IDA:WormBase.
DR GO; GO:0005635; C:nuclear envelope; IBA:GO_Central.
DR GO; GO:0005652; C:nuclear lamina; IBA:GO_Central.
DR GO; GO:0005200; F:structural constituent of cytoskeleton; IBA:GO_Central.
DR GO; GO:0031507; P:heterochromatin assembly; IBA:GO_Central.
DR GO; GO:0006998; P:nuclear envelope organization; IBA:GO_Central.
DR GO; GO:0007097; P:nuclear migration; IBA:GO_Central.
DR GO; GO:0051664; P:nuclear pore localization; IBA:GO_Central.
DR GO; GO:0090435; P:protein localization to nuclear envelope; IBA:GO_Central.
DR Gene3D; 2.60.40.1260; -; 1.
DR InterPro; IPR018039; IF_conserved.
DR InterPro; IPR039008; IF_rod_dom.
DR InterPro; IPR016451; Intermed_filament_ifa/ifb.
DR InterPro; IPR001322; Lamin_tail_dom.
DR InterPro; IPR036415; Lamin_tail_dom_sf.
DR Pfam; PF00038; Filament; 1.
DR Pfam; PF00932; LTD; 1.
DR PIRSF; PIRSF005546; Intermed_filamnt_Ifb-2; 1.
DR SMART; SM01391; Filament; 1.
DR SUPFAM; SSF74853; SSF74853; 1.
DR PROSITE; PS00226; IF_ROD_1; 1.
DR PROSITE; PS51842; IF_ROD_2; 1.
DR PROSITE; PS51841; LTD; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Coiled coil; Cytoplasm; Intermediate filament;
KW Reference proteome.
FT CHAIN 1..575
FT /note="Intermediate filament protein ifa-1"
FT /id="PRO_0000063834"
FT DOMAIN 69..422
FT /note="IF rod"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01188"
FT DOMAIN 455..572
FT /note="LTD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01187"
FT REGION 1..72
FT /note="Head"
FT REGION 1..30
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 45..72
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 73..104
FT /note="Coil 1A"
FT REGION 105..118
FT /note="Linker 1"
FT REGION 119..256
FT /note="Coil 1B"
FT REGION 257..274
FT /note="Linker 12"
FT REGION 275..422
FT /note="Coil 2"
FT REGION 423..572
FT /note="Tail"
FT VAR_SEQ 1..8
FT /note="MMEITRET -> MYTTTRPA (in isoform b)"
FT /evidence="ECO:0000305"
FT /id="VSP_010144"
FT VAR_SEQ 1..8
FT /note="Missing (in isoform c)"
FT /evidence="ECO:0000305"
FT /id="VSP_010145"
FT VAR_SEQ 8
FT /note="T -> SEFLHFNYLNYSDDFPGA (in isoform d)"
FT /evidence="ECO:0000305"
FT /id="VSP_010146"
FT CONFLICT 124
FT /note="V -> VV (in Ref. 1; CAA50182)"
FT /evidence="ECO:0000305"
FT CONFLICT 442..443
FT /note="Missing (in Ref. 1; CAA50182)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 575 AA; 66531 MW; 6B7C9679071B4A70 CRC64;
MMEITRETMS FTSTTPSARA PLGGRTTGNV TSQDRMLKIV TEMRSGAGSG LSPFGQNAAS
TIRDSREREK KEMSDLNDRL ASYIEKVRFL EAQNRKLAAD LDALRSKWGK DTHNIRNMYE
GELVDAQKLI DETNKQRKDM EGQLKKMQDE LAEMRRKLED ATKGREQDRA KIDALLVTLS
NLEAEISLLK RRIAQLEDEV KRIKQENQRL LSELQRARTD LDQETLNRID YQNQVQTLLE
EIDFLRRVHD NEIKELQTLA SRDTTPENRE FFKNELSSAI RDIREEYDQV NNVHRNDMES
WYRLKVQEIQ TQSARQNMEQ GYAKEEVKRL RTQLSDLRGK LADLESRNSL LEKQIQELNY
QLEDDQRSYE AALNDRDSQI RKMREECQAL MVELQMLLDT KQTLDAEIAI YRKMLEGEEN
RAGLKQLVEQ VVKTHAITQE TDTETMRVVK GETASRQSFQ RSAKGNVSIH EASPDGKFIV
LQNTHRAKDE AIGEWKLKRR IDGKRENVYT LPRDFVLRAG KTLKIFARNQ GVASPPDQLV
YDAEDSFGSG NNVQTILFNK EGEERATHIQ RQSTA
