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Entry version 121 (13 Nov 2019)
Sequence version 1 (01 May 2000)
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Protein
Submitted name:

LID domain-containing protein

Gene

ldb-1

Organism
Caenorhabditis elegans
Status
Unreviewed-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>
-Experimental evidence at protein leveli <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

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<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_and_taxonomy_section">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
Submitted name:
LID domain-containing proteinImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:ldb-1Imported
ORF Names:CELE_F58A3.1Imported, F58A3.1Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 elegansImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_and_taxonomy_section">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_and_taxonomy_section">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_manual">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
F58A3.1c ; CE23789 ; WBGene00002261 ; ldb-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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<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

Proteomic databases

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

More...
PaxDbi
Q9U3E2

<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
WBGene00002261 Expressed in 5 organ(s), highest expression level in pharyngeal muscle cell (C elegans)

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q9U3E2 baseline and differential

<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

GO - Molecular functioni

Protein-protein interaction databases

Protein interaction database and analysis system

More...
IntActi
Q9U3E2, 2 interactors

STRING: functional protein association networks

More...
STRINGi
6239.F58A3.1c

<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
Q9U3E2

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_and_domains_section">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>Domaini415 – 442LIDInterPro annotationAdd BLAST28

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>Regioni342 – 406DisorderedSequence analysisAdd BLAST65
Regioni474 – 495DisorderedSequence analysisAdd BLAST22
Regioni596 – 629DisorderedSequence analysisAdd BLAST34

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi385 – 406PolarSequence analysisAdd BLAST22
Compositional biasi609 – 623Pro-richSequence analysisAdd BLAST15

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2181 Eukaryota
ENOG410YZVH LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000005639

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000021159

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9U3E2

KEGG Orthology (KO)

More...
KOi
K15617

Identification of Orthologs from Complete Genome Data

More...
OMAi
LEFRIHD

Database of Orthologous Groups

More...
OrthoDBi
849287at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9U3E2

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR041363 LID
IPR029005 LIM-bd/SEUSS

The PANTHER Classification System

More...
PANTHERi
PTHR10378 PTHR10378, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF17916 LID, 1 hit
PF01803 LIM_bind, 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_length">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>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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 has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

Q9U3E2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MCVVIFLKFL FSDNGNNQHG TEAAFGRLAQ SYRIQDLLFI IVIFFRAIHI
60 70 80 90 100
MMFHRPPSAR PPLNHVDQLK SLQATALGKP GMRSQATEPQ PIGNTVSPLE
110 120 130 140 150
FRIHDMNRRL YIFSSTGVSE NDQQQWWDAF SHEFFDDDCK LWFVIGSEPV
160 170 180 190 200
AFASRERYII NRQFIPKFFR SIFDSGMREL QYVLRGPSRE CTLANGSQAY
210 220 230 240 250
ENENVLQITR YDQSSQFEVN TEGKLYVEFA PFDEVMNYRI KAWTLELKRS
260 270 280 290 300
NEFVYNQNTA DYRVEAQNPE QENKPRMGFF KSTFNLMTML KILDPMQSIM
310 320 330 340 350
SSAKSAPAIT PREVMKRTLF QHHQVRQQNM RQQQLNQQMM IPAPEPEKPK
360 370 380 390 400
PARKRQRKPA ANPRGSKKAT AAAAAAAAAA TNGVPPTVPT ASPANNQQFP
410 420 430 440 450
PNPMTSQFQQ MSYPDVMVVG EPSMMGSEFG ENDERTISRV ENSQYDPNAM
460 470 480 490 500
QMQSLGQGPN SSMNINGRNM MNQHHPGMQP PPGQQHMPPH SMGSQMPTSM
510 520 530 540 550
HNPMHMPPGS MQGHGGMPPM PSTMANQMPP PNLPPHTMSN QMPNSRMPPM
560 570 580 590 600
QGQMPPSGMP GQMSNPNMMG SGMPPMSMSS QMPGSMSNPM PNQMPGGMQM
610 620
NQMPPPNYSQ YTGGPPPQWP PPNSAMITG
Length:629
Mass (Da):70,693
Last modified:May 1, 2000 - v1
<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:i00A550BAC019AA5C
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
Q8I4H8Q8I4H8_CAEEL
LID domain-containing protein
ldb-1 CELE_F58A3.1, F58A3.1
578Annotation 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>
G5EEL0G5EEL0_CAEEL
F58A3.1a
ldb-1 CELE_F58A3.1, F58A3.1
592Annotation 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>

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
BX284606 Genomic DNA Translation: CAB54257.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T22890

NCBI Reference Sequences

More...
RefSeqi
NP_509844.3, NM_077443.5

Genome annotation databases

Ensembl metazoan genome annotation project

More...
EnsemblMetazoai
F58A3.1c.1; F58A3.1c.1; WBGene00002261

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
181292

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cel:CELE_F58A3.1

UCSC genome browser

More...
UCSCi
F58A3.1c c. elegans

<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
BX284606 Genomic DNA Translation: CAB54257.1
PIRiT22890
RefSeqiNP_509844.3, NM_077443.5

3D structure databases

SMRiQ9U3E2
ModBaseiSearch...

Protein-protein interaction databases

IntActiQ9U3E2, 2 interactors
STRINGi6239.F58A3.1c

Proteomic databases

PaxDbiQ9U3E2

Genome annotation databases

EnsemblMetazoaiF58A3.1c.1; F58A3.1c.1; WBGene00002261
GeneIDi181292
KEGGicel:CELE_F58A3.1
UCSCiF58A3.1c c. elegans

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
181292
WormBaseiF58A3.1c ; CE23789 ; WBGene00002261 ; ldb-1

Phylogenomic databases

eggNOGiKOG2181 Eukaryota
ENOG410YZVH LUCA
GeneTreeiENSGT00390000005639
HOGENOMiHOG000021159
InParanoidiQ9U3E2
KOiK15617
OMAiLEFRIHD
OrthoDBi849287at2759
PhylomeDBiQ9U3E2

Gene expression databases

BgeeiWBGene00002261 Expressed in 5 organ(s), highest expression level in pharyngeal muscle cell (C elegans)
ExpressionAtlasiQ9U3E2 baseline and differential

Family and domain databases

InterProiView protein in InterPro
IPR041363 LID
IPR029005 LIM-bd/SEUSS
PANTHERiPTHR10378 PTHR10378, 1 hit
PfamiView protein in Pfam
PF17916 LID, 1 hit
PF01803 LIM_bind, 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 nameiQ9U3E2_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: Q9U3E2
Secondary accession number(s): O02518
, O02599, Q93803, Q93807
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: May 1, 2000
Last sequence update: May 1, 2000
Last modified: November 13, 2019
This is version 121 of the entry and version 1 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 statusiUnreviewed (UniProtKB/TrEMBL)

<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

<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 - Technical termi

Complete proteome, Proteomics identificationCombined sources, Reference proteomeImported
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