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Q19289

- IFB1_CAEEL

UniProt

Q19289 - IFB1_CAEEL

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Protein
Intermediate filament protein ifb-1
Gene
ifb-1, F10C1.2
Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

Cytoplasmic intermediate filaments provide mechanical strength to cells. Essential protein, involved in attachment structures in epidermal cells that connect muscles to the external cuticle. Required in morphogenesis and epidermal integrity. Probable component of embryonic epidermal attachment structures. Functions in larval muscle attachment independently of ifa-2.3 Publications

GO - Molecular functioni

  1. protein binding Source: IntAct
  2. structural molecule activity Source: InterPro
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Intermediate filament protein ifb-1
Alternative name(s):
Cel IF B1
Intermediate filament protein B1
Short name:
IF-B1
Gene namesi
Name:ifb-1
ORF Names:F10C1.2
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940: Chromosome II

Organism-specific databases

WormBaseiF10C1.2a; CE02618; WBGene00002053; ifb-1.
F10C1.2b; CE02619; WBGene00002053; ifb-1.

Subcellular locationi

Cytoplasm By similarity 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. intermediate filament Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Intermediate filament

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 589589Intermediate filament protein ifb-1
PRO_0000063838Add
BLAST

Proteomic databases

PaxDbiQ19289.
PRIDEiQ19289.

2D gel databases

World-2DPAGE0020:Q19289.

Expressioni

Tissue specificityi

Expressed in epidermal cells. Expressed in amphid sensory neurons, the excretory cells, the vulva, the uterus, the rectum and some neurons of the tail. Isoform a and isoform b display a similar pattern of expression. Isoform a is predominant in pharyngeal tonofilaments.2 Publications

Interactioni

Subunit structurei

Forms some heteropolymeric filaments with ifa-1, ifa-2, ifa-3 and probably ifa-4.

Binary interactionsi

WithEntry#Exp.IntActNotes
CELE_Y56A3A.7A7DTF54EBI-316236,EBI-2413939
T04C9.1Q8MPT25EBI-316236,EBI-2315635

Protein-protein interaction databases

BioGridi39317. 6 interactions.
DIPiDIP-26309N.
IntActiQ19289. 9 interactions.
MINTiMINT-1053724.

Structurei

3D structure databases

ProteinModelPortaliQ19289.
SMRiQ19289. Positions 473-583.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini467 – 584118LTD
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 8477Head
Add
BLAST
Regioni85 – 433349Rod
Add
BLAST
Regioni85 – 11632Coil 1A
Add
BLAST
Regioni117 – 13014Linker 1
Add
BLAST
Regioni131 – 268138Coil 1B
Add
BLAST
Regioni269 – 28517Linker 12
Add
BLAST
Regioni286 – 433148Coil 2
Add
BLAST
Regioni434 – 588155Tail
Add
BLAST

Sequence similaritiesi

Contains 1 LTD domain.

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiNOG315022.
GeneTreeiENSGT00750000117244.
HOGENOMiHOG000017007.
InParanoidiQ19289.
OMAiRRMREEC.
OrthoDBiEOG7FV3Q8.
PhylomeDBiQ19289.

Family and domain databases

Gene3Di2.60.40.1260. 1 hit.
InterProiIPR001664. IF.
IPR016451. Intermed_filament_ifa/ifb.
IPR018039. Intermediate_filament_CS.
IPR001322. Lamin_tail_dom.
[Graphical view]
PANTHERiPTHR23239. PTHR23239. 1 hit.
PfamiPF00038. Filament. 1 hit.
PF00932. LTD. 1 hit.
[Graphical view]
PIRSFiPIRSF005546. Intermed_filamnt_Ifb-2. 1 hit.
SUPFAMiSSF74853. SSF74853. 1 hit.
PROSITEiPS00226. IF. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform a (identifier: Q19289-1) [UniParc]FASTAAdd to Basket

Also known as: B1b, IFB-1B

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

MSSHKESSEY EMQYRSTIQP RTAVRSQSRQ SGNYVSGGNG AGSGGRVLKM    50
VTEMGSATVG GISPALSANA AKSFLEATDK EKKTLQGLND RLGNYIDRVK 100
KLEEQNRKLV ADLDELRGKW GKDTSEIKIK YSESLSTARK DIDDAARRKA 150
EVDVKVARHR DDLAEYRSRY EDIQQRRESD REKISQWTNA IADAQSEVEM 200
LRARFKQLTD EEKRVTADNS RIWEELQKAR SDLDDETIGR IDFQNQVQTL 250
MEELEFLRRV HEQEVKELQA LLAQAPADTR EFFKNELALA IRDIKDEYDI 300
IAKQGKQDME SWYKLKVSEV QGSANRANME STYQRDEVKR MRDNIGDLRG 350
KLGDLENKNS LLEKEVQNLN YQLTDDQRQY EAALNDRDAT LRRMREECQT 400
LVAELQALLD TKQMLDAEIA IYRKMLEGEE TRVGLTQMVE QAVKTHSLQQ 450
QENTDSTRSV RGEVSTKTTF QRSAKGNVTI SECDPNGKFI KLENSHRNKD 500
ENVGEHKIRR KLDGRREIVY SIPANVVIKP GKNLTIYARD QGGINNPPES 550
LVFDGENTWG IGANVVTSLV NKDGEERATH TQKTIQSGQ 589
Length:589
Mass (Da):67,149
Last modified:November 1, 1996 - v1
Checksum:iC4B6231224ED9AB0
GO
Isoform b (identifier: Q19289-2) [UniParc]FASTAAdd to Basket

Also known as: B1a IFB-1A

The sequence of this isoform differs from the canonical sequence as follows:
     1-42: MSSHKESSEYEMQYRSTIQPRTAVRSQSRQSGNYVSGGNGAG → MEAESAPQAPM

Show »
Length:558
Mass (Da):63,700
Checksum:iA25DFFAE9DAD7AAF
GO

Sequence cautioni

The sequence CAA50178.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 4242MSSHK…GNGAG → MEAESAPQAPM in isoform b.
VSP_010147Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X70830 Genomic DNA. Translation: CAA50178.1. Sequence problems.
FO080600 Genomic DNA. Translation: CCD65029.1.
FO080600 Genomic DNA. Translation: CCD65030.1.
PIRiD88163.
T16018. S46326.
RefSeqiNP_495136.1. NM_062735.4. [Q19289-1]
NP_495137.1. NM_062736.3. [Q19289-2]
UniGeneiCel.7922.

Genome annotation databases

EnsemblMetazoaiF10C1.2b; F10C1.2b; WBGene00002053. [Q19289-1]
GeneIDi173976.
KEGGicel:CELE_F10C1.2.
UCSCiF10C1.2b. c. elegans. [Q19289-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X70830 Genomic DNA. Translation: CAA50178.1 . Sequence problems.
FO080600 Genomic DNA. Translation: CCD65029.1 .
FO080600 Genomic DNA. Translation: CCD65030.1 .
PIRi D88163.
T16018. S46326.
RefSeqi NP_495136.1. NM_062735.4. [Q19289-1 ]
NP_495137.1. NM_062736.3. [Q19289-2 ]
UniGenei Cel.7922.

3D structure databases

ProteinModelPortali Q19289.
SMRi Q19289. Positions 473-583.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 39317. 6 interactions.
DIPi DIP-26309N.
IntActi Q19289. 9 interactions.
MINTi MINT-1053724.

2D gel databases

World-2DPAGE 0020:Q19289.

Proteomic databases

PaxDbi Q19289.
PRIDEi Q19289.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblMetazoai F10C1.2b ; F10C1.2b ; WBGene00002053 . [Q19289-1 ]
GeneIDi 173976.
KEGGi cel:CELE_F10C1.2.
UCSCi F10C1.2b. c. elegans. [Q19289-1 ]

Organism-specific databases

CTDi 173976.
WormBasei F10C1.2a ; CE02618 ; WBGene00002053 ; ifb-1.
F10C1.2b ; CE02619 ; WBGene00002053 ; ifb-1.

Phylogenomic databases

eggNOGi NOG315022.
GeneTreei ENSGT00750000117244.
HOGENOMi HOG000017007.
InParanoidi Q19289.
OMAi RRMREEC.
OrthoDBi EOG7FV3Q8.
PhylomeDBi Q19289.

Miscellaneous databases

NextBioi 881937.

Family and domain databases

Gene3Di 2.60.40.1260. 1 hit.
InterProi IPR001664. IF.
IPR016451. Intermed_filament_ifa/ifb.
IPR018039. Intermediate_filament_CS.
IPR001322. Lamin_tail_dom.
[Graphical view ]
PANTHERi PTHR23239. PTHR23239. 1 hit.
Pfami PF00038. Filament. 1 hit.
PF00932. LTD. 1 hit.
[Graphical view ]
PIRSFi PIRSF005546. Intermed_filamnt_Ifb-2. 1 hit.
SUPFAMi SSF74853. SSF74853. 1 hit.
PROSITEi PS00226. IF. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Eight genes and alternative RNA processing pathways generate an unexpectedly large diversity of cytoplasmic intermediate filament proteins in the nematode Caenorhabditis elegans."
    Dodemont H., Riemer D., Ledger T.N., Weber K.
    EMBO J. 13:2625-2638(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORM B).
    Strain: Bristol N2.
  2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
    Strain: Bristol N2.
  3. "Essential roles for four cytoplasmic intermediate filament proteins in Caenorhabditis elegans development."
    Karabinos A., Schmidt H., Harborth J., Schnabel R., Weber K.
    Proc. Natl. Acad. Sci. U.S.A. 98:7863-7868(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY.
  4. "In vivo and in vitro evidence that the four essential intermediate filament (IF) proteins A1, A2, A3 and B1 of the nematode Caenorhabditis elegans form an obligate heteropolymeric IF system."
    Karabinos A., Schulze E., Schuenemann J., Parry D.A.D., Weber K.
    J. Mol. Biol. 333:307-319(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH IFA-1; IFA-2; IFA-3 AND IFA-4.
  5. "Intermediate filaments are required for C. elegans epidermal elongation."
    Woo W.-M., Goncharov A., Jin Y., Chisholm A.D.
    Dev. Biol. 267:216-229(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.

Entry informationi

Entry nameiIFB1_CAEEL
AccessioniPrimary (citable) accession number: Q19289
Secondary accession number(s): Q19290, Q21063
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: November 1, 1996
Last modified: September 3, 2014
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi