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Entry version 124 (07 Apr 2021)
Sequence version 2 (26 Apr 2004)
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Protein

Intermediate filament protein ifd-1

Gene

ifd-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Cytoplasmic intermediate filaments provide mechanical strength to cells. Not essential protein.1 Publication

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Intermediate filament protein ifd-1
Alternative name(s):
Cel IF D1
Intermediate filament protein D1
Short name:
IF-D1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:ifd-1
ORF Names:R04E5.10
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiCaenorhabditis elegans
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri6239 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditinaRhabditomorphaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000001940 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome X

Organism-specific databases

WormBase

More...
WormBasei
R04E5.10a ; CE30100 ; WBGene00002057 ; ifd-1
R04E5.10b ; CE33933 ; WBGene00002057 ; ifd-1

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywords - Cellular componenti

Cytoplasm, Intermediate filament

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000638431 – 575Intermediate filament protein ifd-1Add BLAST575

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q86DC6

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q86DC6

PeptideAtlas

More...
PeptideAtlasi
Q86DC6

PRoteomics IDEntifications database

More...
PRIDEi
Q86DC6

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q86DC6

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
WBGene00002057, Expressed in material anatomical entity and 4 other tissues

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
52274, 5 interactors

Database of interacting proteins

More...
DIPi
DIP-26000N

Protein interaction database and analysis system

More...
IntActi
Q86DC6, 2 interactors

STRING: functional protein association networks

More...
STRINGi
6239.R04E5.10a

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q86DC6

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini53 – 406IF rodPROSITE-ProRule annotationAdd BLAST354
Domaini459 – 575LTDPROSITE-ProRule annotationAdd BLAST117

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 56HeadAdd BLAST56
Regioni57 – 88Coil 1AAdd BLAST32
Regioni89 – 102Linker 1Add BLAST14
Regioni103 – 240Coil 1BAdd BLAST138
Regioni241 – 258Linker 12Add BLAST18
Regioni259 – 408Coil 2Add BLAST150
Regioni409 – 572TailAdd BLAST164

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the intermediate filament family.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0977, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00970000196250

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_032944_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q86DC6

Identification of Orthologs from Complete Genome Data

More...
OMAi
IEHKDES

Database of Orthologous Groups

More...
OrthoDBi
701388at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q86DC6

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.20.5.1160, 1 hit
2.60.40.1260, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR039008, IF_rod_dom
IPR042180, IF_rod_dom_coil1B
IPR001322, Lamin_tail_dom
IPR036415, Lamin_tail_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00038, Filament, 1 hit
PF00932, LTD, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM01391, Filament, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF74853, SSF74853, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51842, IF_ROD_2, 1 hit
PS51841, LTD, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (2)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry describes 2 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket
Isoform a (identifier: Q86DC6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
        10         20         30         40         50
MSKLNPRVAH NPVLSRIIES GRTNLPSGIT SAGSLSAYAQ AAAVTIRDNR
60 70 80 90 100
DREKREIADL NNRLARYVEK VRFLEAQNRV LENDIGLFRQ AAHIHTGKVR
110 120 130 140 150
DYYDAEKTSL ATLVREQEAK VSSAKQNIRK LEPEITTAIR TLASSLEHRQ
160 170 180 190 200
RVRSDKKEQL KHLSDLESET AYIKRLINDC DDEKSHLKTE ISRIRGEIKR
210 220 230 240 250
ILALRDKERN GFSRSQTAAQ DLLKKLNATI STHEIAIREE INKARRDSTD
260 270 280 290 300
KNREFFHREL HMSMKEIRDQ FESDSKKARK TWEEWYKKKI TEIKKRSEKF
310 320 330 340 350
SLTQNQAREE VLRIRSLLNE LRTKISDADS MTQALSKRIE DMKFREDEEL
360 370 380 390 400
RMFEQSLTEK ELAVTRMRDE CAKLSVELET LVENQINLRS EIAHYRKLME
410 420 430 440 450
QAENLRTSYQ SDFVIDTPSP LMRTSSHHYG SSYSLNVRDT HNKTVHHDNY
460 470 480 490 500
DISSASTINT QQFRSYGKGD VKIIEHKDES IVIENSNSYK SKDLSNWKIN
510 520 530 540 550
HYVNGALTGT FILPVATHIH PHEKISIHSL KSPNLMDDIV ATQIYSFDFS
560 570
KNTKTVLLDD VDDEVGWYAH VSYSH
Length:575
Mass (Da):66,700
Last modified:April 26, 2004 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iDCD9581BECC52C01
GO
Isoform b (identifier: Q86DC6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     442-465: NKTVHHDNYDISSASTINTQQFRS → KIPPCWYIFGRKVKFGIFRPVKPK
     466-575: Missing.

Show »
Length:465
Mass (Da):54,374
Checksum:iB40939CDB979EEB7
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_010151442 – 465NKTVH…QQFRS → KIPPCWYIFGRKVKFGIFRP VKPK in isoform b. CuratedAdd BLAST24
Alternative sequenceiVSP_010152466 – 575Missing in isoform b. CuratedAdd BLAST110

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
FO080702 Genomic DNA Translation: CCD65958.1
FO080702 Genomic DNA Translation: CCD65959.1

NCBI Reference Sequences

More...
RefSeqi
NP_001024830.1, NM_001029659.4 [Q86DC6-1]
NP_001024831.1, NM_001029660.3

Genome annotation databases

Ensembl metazoan genome annotation project

More...
EnsemblMetazoai
R04E5.10a.1; R04E5.10a.1; WBGene00002057 [Q86DC6-1]
R04E5.10b.1; R04E5.10b.1; WBGene00002057 [Q86DC6-2]

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
187585

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cel:CELE_R04E5.10

UCSC genome browser

More...
UCSCi
R04E5.10a, c. elegans [Q86DC6-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080702 Genomic DNA Translation: CCD65958.1
FO080702 Genomic DNA Translation: CCD65959.1
RefSeqiNP_001024830.1, NM_001029659.4 [Q86DC6-1]
NP_001024831.1, NM_001029660.3

3D structure databases

SMRiQ86DC6
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi52274, 5 interactors
DIPiDIP-26000N
IntActiQ86DC6, 2 interactors
STRINGi6239.R04E5.10a

PTM databases

iPTMnetiQ86DC6

Proteomic databases

EPDiQ86DC6
PaxDbiQ86DC6
PeptideAtlasiQ86DC6
PRIDEiQ86DC6

Genome annotation databases

EnsemblMetazoaiR04E5.10a.1; R04E5.10a.1; WBGene00002057 [Q86DC6-1]
R04E5.10b.1; R04E5.10b.1; WBGene00002057 [Q86DC6-2]
GeneIDi187585
KEGGicel:CELE_R04E5.10
UCSCiR04E5.10a, c. elegans [Q86DC6-1]

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
187585
WormBaseiR04E5.10a ; CE30100 ; WBGene00002057 ; ifd-1
R04E5.10b ; CE33933 ; WBGene00002057 ; ifd-1

Phylogenomic databases

eggNOGiKOG0977, Eukaryota
GeneTreeiENSGT00970000196250
HOGENOMiCLU_032944_0_0_1
InParanoidiQ86DC6
OMAiIEHKDES
OrthoDBi701388at2759
PhylomeDBiQ86DC6

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q86DC6

Gene expression databases

BgeeiWBGene00002057, Expressed in material anatomical entity and 4 other tissues

Family and domain databases

Gene3Di1.20.5.1160, 1 hit
2.60.40.1260, 1 hit
InterProiView protein in InterPro
IPR039008, IF_rod_dom
IPR042180, IF_rod_dom_coil1B
IPR001322, Lamin_tail_dom
IPR036415, Lamin_tail_dom_sf
PfamiView protein in Pfam
PF00038, Filament, 1 hit
PF00932, LTD, 1 hit
SMARTiView protein in SMART
SM01391, Filament, 1 hit
SUPFAMiSSF74853, SSF74853, 1 hit
PROSITEiView protein in PROSITE
PS51842, IF_ROD_2, 1 hit
PS51841, LTD, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiIFD1_CAEEL
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q86DC6
Secondary accession number(s): Q9GYL1
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: April 26, 2004
Last modified: April 7, 2021
This is version 124 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

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
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