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Entry version 166 (13 Feb 2019)
Sequence version 2 (23 Jan 2002)
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Protein

PDZ and LIM domain protein 4

Gene

PDLIM4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 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

Isoform 1: Suppresses SRC activation by recognizing and binding to active SRC and facilitating PTPN13-mediated dephosphorylation of SRC 'Tyr-419' leading to its inactivation. Inactivated SRC dissociates from this protein allowing the initiation of a new SRC inactivation cycle (PubMed:19307596). Involved in reorganization of the actin cytoskeleton (PubMed:21636573). In nonmuscle cells, binds to ACTN1 (alpha-actinin-1), increases the affinity of ACTN1 to F-actin (filamentous actin), and promotes formation of actin stress fibers. Involved in regulation of the synaptic AMPA receptor transport in dendritic spines of hippocampal pyramidal neurons directing the receptors toward an insertion at the postsynaptic membrane. Links endosomal surface-internalized GRIA1-containing AMPA receptors to the alpha-actinin/actin cytoskeleton. Increases AMPA receptor-mediated excitatory postsynaptic currents in neurons (By similarity).By similarity2 Publications
Isoform 2: Involved in reorganization of the actin cytoskeleton and in regulation of cell migration. In response to oxidative stress, binds to NQO1, which stabilizes it and protects it from ubiquitin-independent degradation by the core 20S proteasome. Stabilized protein is able to heterodimerize with isoform 1 changing the subcellular location of it from cytoskeleton and nuclei to cytosol, leading to loss of isoforms 1 ability to induce formation of actin stress fibers. Counteracts the effects produced by isoform 1 on organization of actin cytoskeleton and cell motility to fine-tune actin cytoskeleton rearrangement and to attenuate cell migration.1 Publication

<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

  • alpha-actinin binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • protein homodimerization activity Source: UniProtKB
  • protein phosphatase binding Source: UniProtKB

GO - Biological processi

<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>Keywordsi

LigandMetal-binding, Zinc

<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
Recommended name:
PDZ and LIM domain protein 4
Alternative name(s):
LIM protein RIL
Reversion-induced LIM protein
<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:PDLIM4
Synonyms:RIL
<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>OrganismiHomo sapiens (Human)
<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 identifieri9606 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<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
  • UP000005640 <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 5

Organism-specific databases

Eukaryotic Pathogen Database Resources

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EuPathDBi
HostDB:ENSG00000131435.12

Human Gene Nomenclature Database

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HGNCi
HGNC:16501 PDLIM4

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
603422 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_P50479

<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

Keywords - Cellular componenti

Cell junction, Cell projection, Cytoplasm, Cytoskeleton, Endosome, Membrane, Nucleus, Synapse, Synaptosome

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

DisGeNET

More...
DisGeNETi
8572

MalaCards human disease database

More...
MalaCardsi
PDLIM4

Open Targets

More...
OpenTargetsi
ENSG00000131435

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA134869796

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
PDLIM4

Domain mapping of disease mutations (DMDM)

More...
DMDMi
20141642

<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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000758731 – 330PDZ and LIM domain protein 4Add BLAST330

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei112PhosphoserineCombined sources1
Modified residuei116PhosphoserineBy similarity1
Modified residuei120PhosphoserineBy similarity1
Modified residuei135PhosphoserineBy similarity1

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

Phosphorylated on tyrosine residue(s). Can be dephosphorylated by PTPN13.By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

Encyclopedia of Proteome Dynamics

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EPDi
P50479

jPOST - Japan Proteome Standard Repository/Database

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jPOSTi
P50479

MaxQB - The MaxQuant DataBase

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MaxQBi
P50479

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

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PaxDbi
P50479

PeptideAtlas

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PeptideAtlasi
P50479

PRoteomics IDEntifications database

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PRIDEi
P50479

ProteomicsDB human proteome resource

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ProteomicsDBi
56232
56233 [P50479-2]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

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iPTMneti
P50479

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

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PhosphoSitePlusi
P50479

<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

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Isoform 2 is found in brain.1 Publication

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Isoform 2 expression is up-regulated by UV irradiation and to a lesser extent by oxidative stress.1 Publication

Gene expression databases

Bgee dataBase for Gene Expression Evolution

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Bgeei
ENSG00000131435 Expressed in 195 organ(s), highest expression level in esophagogastric junction muscularis propria

ExpressionAtlas, Differential and Baseline Expression

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ExpressionAtlasi
P50479 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

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Genevisiblei
P50479 HS

Organism-specific databases

Human Protein Atlas

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HPAi
HPA011912

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer (PubMed:25158098). Interacts with PTPN13 (PubMed:19307596). Interacts (via C-terminus only or via combined C-terminus and LIM domain, but not LIM domain only) with PTPN13 (via the second or fourth PDZ domains). Found in a complex with PTPN13 and TRIP6 (By similarity). Interacts (via PDZ domain) with ACTN1 and ACTN2 (via C-terminal SDL residues) (By similarity). Interacts (via PDZ domain) with TRIP6 (via the second LIM domain or via the third LIM domain plus C-terminus) (PubMed:10826496). Interacts (via LIM domain) with GRIA1 (via C-terminus); this interaction as well as the interaction with alpha-actinin is required for their colocalization in early endosomes. Interacts with PDLIM1 (By similarity). Forms (via LIM domain) a heterodimer with PDLIM3 (By similarity). Interacts directly with SRC (via kinase domain and to a lesser extent the SH2 domain) (PubMed:19307596). Isoform 2 interacts with NQO1. NQO1-stabilized isoform 2 heterodimerizes with isoform 1 (PubMed:21636573).By similarity4 Publications

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

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BioGridi
114140, 5 interactors

Protein interaction database and analysis system

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IntActi
P50479, 16 interactors

Molecular INTeraction database

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MINTi
P50479

STRING: functional protein association networks

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STRINGi
9606.ENSP00000253754

<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

Secondary structure

1330
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EEGNMR-A1-81[»]
2V1WX-ray1.90A/B1-85[»]
4Q2OX-ray2.10A/B/C/D/E/F1-84[»]

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

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ProteinModelPortali
P50479

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

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SMRi
P50479

Database of comparative protein structure models

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ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

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EvolutionaryTracei
P50479

<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>Domaini1 – 84PDZPROSITE-ProRule annotationCombined sources1 PublicationAdd BLAST84
Domaini253 – 312LIM zinc-bindingPROSITE-ProRule annotationAdd BLAST60

Keywords - Domaini

LIM domain

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
KOG1703 Eukaryota
ENOG410XRD4 LUCA

Ensembl GeneTree

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GeneTreei
ENSGT00940000159536

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

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HOGENOMi
HOG000290704

The HOVERGEN Database of Homologous Vertebrate Genes

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HOVERGENi
HBG061371

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
P50479

Identification of Orthologs from Complete Genome Data

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OMAi
QAYRINI

Database of Orthologous Groups

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OrthoDBi
840552at2759

Database for complete collections of gene phylogenies

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PhylomeDBi
P50479

TreeFam database of animal gene trees

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TreeFami
TF106408

Family and domain databases

Integrated resource of protein families, domains and functional sites

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InterProi
View protein in InterPro
IPR031847 DUF4749
IPR001478 PDZ
IPR036034 PDZ_sf
IPR001781 Znf_LIM

Pfam protein domain database

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Pfami
View protein in Pfam
PF15936 DUF4749, 1 hit
PF00412 LIM, 1 hit
PF00595 PDZ, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

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SMARTi
View protein in SMART
SM00132 LIM, 1 hit
SM00228 PDZ, 1 hit

Superfamily database of structural and functional annotation

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SUPFAMi
SSF50156 SSF50156, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00478 LIM_DOMAIN_1, 1 hit
PS50023 LIM_DOMAIN_2, 1 hit
PS50106 PDZ, 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>.<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_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 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.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 1 (identifier: P50479-1) [UniParc]FASTAAdd to basket

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
        10         20         30         40         50
MPHSVTLRGP SPWGFRLVGG RDFSAPLTIS RVHAGSKAAL AALCPGDLIQ
60 70 80 90 100
AINGESTELM THLEAQNRIK GCHDHLTLSV SRPEGRSWPS APDDSKAQAH
110 120 130 140 150
RIHIDPEIQD GSPTTSRRPS GTGTGPEDGR PSLGSPYGQP PRFPVPHNGS
160 170 180 190 200
SEATLPAQMS TLHVSPPPSA DPARGLPRSR DCRVDLGSEV YRMLREPAEP
210 220 230 240 250
VAAEPKQSGS FRYLQGMLEA GEGGDWPGPG GPRNLKPTAS KLGAPLSGLQ
260 270 280 290 300
GLPECTRCGH GIVGTIVKAR DKLYHPECFM CSDCGLNLKQ RGYFFLDERL
310 320 330
YCESHAKARV KPPEGYDVVA VYPNAKVELV
Length:330
Mass (Da):35,398
Last modified:January 23, 2002 - 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:i68FCA8FD93700E7B
GO
Isoform 2 (identifier: P50479-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     225-330: DWPGPGGPRN...VYPNAKVELV → APSSRHGTSSTIPSASCAVTAA

Show »
Length:246
Mass (Da):25,854
Checksum:i202F54C12328320E
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 is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
C9J542C9J542_HUMAN
PDZ and LIM domain protein 4
PDLIM4
121Annotation score:

Annotation score:1 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 Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti20Missing in CAA63767 (Ref. 1) Curated1
Sequence conflicti39A → S in CAA63767 (Ref. 1) Curated1
Sequence conflicti139Q → K in CAA63767 (Ref. 1) Curated1
Sequence conflicti174 – 182RGLPRSRDC → EASRGAGS in CAA63767 (Ref. 1) Curated9
Sequence conflicti269A → E in CAA63767 (Ref. 1) Curated1

<p>This subsection of the ‘Sequence’ section provides information on polymorphic variants. If the variant is associated with a disease state, the description of the latter can be found in the <a href="http://www.uniprot.org/manual/involvement_in_disease">'Involvement in disease'</a> subsection.<p><a href='/help/polymorphism' target='_top'>More...</a></p>Polymorphismi

Genetic variations in PDLIM4 may be correlated with bone mineral density (BMD). Low BMD is a risk factor for osteoporotic fracture. Osteoporosis is characterized by reduced bone mineral density, disruption of bone microarchitecture, and the alteration of the amount and variety of non-collagenous proteins in bone. Osteoporotic bones are more at risk of fracture.

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural variantiVAR_035205118R → G1 PublicationCorresponds to variant dbSNP:rs17851430Ensembl.1
Natural variantiVAR_050167142R → C1 PublicationCorresponds to variant dbSNP:rs1050805Ensembl.1
Natural variantiVAR_035206184V → I. Corresponds to variant dbSNP:rs175218Ensembl.1
Natural variantiVAR_035207259G → C1 PublicationCorresponds to variant dbSNP:rs4877Ensembl.1

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_003124225 – 330DWPGP…KVELV → APSSRHGTSSTIPSASCAVT AA in isoform 2. 2 PublicationsAdd BLAST106

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
X93510 mRNA Translation: CAA63767.1
AF153882 mRNA Translation: AAD38070.1
AF154335 mRNA Translation: AAD34646.1
U82997 Genomic DNA Translation: AAC52072.1
AK313508 mRNA Translation: BAG36288.1
BT007019 mRNA Translation: AAP35665.1
CH471062 Genomic DNA Translation: EAW62349.1
CH471062 Genomic DNA Translation: EAW62351.1
BC003096 mRNA Translation: AAH03096.1
BC016765 mRNA Translation: AAH16765.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS4152.1 [P50479-1]
CCDS47261.1 [P50479-2]

NCBI Reference Sequences

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RefSeqi
NP_001124499.1, NM_001131027.1 [P50479-2]
NP_003678.2, NM_003687.3 [P50479-1]

UniGene gene-oriented nucleotide sequence clusters

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UniGenei
Hs.424312

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000253754; ENSP00000253754; ENSG00000131435 [P50479-1]
ENST00000379018; ENSP00000368303; ENSG00000131435 [P50479-2]

Database of genes from NCBI RefSeq genomes

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GeneIDi
8572

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:8572

UCSC genome browser

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UCSCi
uc003kwn.4 human [P50479-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

<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
X93510 mRNA Translation: CAA63767.1
AF153882 mRNA Translation: AAD38070.1
AF154335 mRNA Translation: AAD34646.1
U82997 Genomic DNA Translation: AAC52072.1
AK313508 mRNA Translation: BAG36288.1
BT007019 mRNA Translation: AAP35665.1
CH471062 Genomic DNA Translation: EAW62349.1
CH471062 Genomic DNA Translation: EAW62351.1
BC003096 mRNA Translation: AAH03096.1
BC016765 mRNA Translation: AAH16765.1
CCDSiCCDS4152.1 [P50479-1]
CCDS47261.1 [P50479-2]
RefSeqiNP_001124499.1, NM_001131027.1 [P50479-2]
NP_003678.2, NM_003687.3 [P50479-1]
UniGeneiHs.424312

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EEGNMR-A1-81[»]
2V1WX-ray1.90A/B1-85[»]
4Q2OX-ray2.10A/B/C/D/E/F1-84[»]
ProteinModelPortaliP50479
SMRiP50479
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114140, 5 interactors
IntActiP50479, 16 interactors
MINTiP50479
STRINGi9606.ENSP00000253754

PTM databases

iPTMnetiP50479
PhosphoSitePlusiP50479

Polymorphism and mutation databases

BioMutaiPDLIM4
DMDMi20141642

Proteomic databases

EPDiP50479
jPOSTiP50479
MaxQBiP50479
PaxDbiP50479
PeptideAtlasiP50479
PRIDEiP50479
ProteomicsDBi56232
56233 [P50479-2]

Protocols and materials databases

The DNASU plasmid repository

More...
DNASUi
8572
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000253754; ENSP00000253754; ENSG00000131435 [P50479-1]
ENST00000379018; ENSP00000368303; ENSG00000131435 [P50479-2]
GeneIDi8572
KEGGihsa:8572
UCSCiuc003kwn.4 human [P50479-1]

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
8572
DisGeNETi8572
EuPathDBiHostDB:ENSG00000131435.12

GeneCards: human genes, protein and diseases

More...
GeneCardsi
PDLIM4
HGNCiHGNC:16501 PDLIM4
HPAiHPA011912
MalaCardsiPDLIM4
MIMi603422 gene
neXtProtiNX_P50479
OpenTargetsiENSG00000131435
PharmGKBiPA134869796

GenAtlas: human gene database

More...
GenAtlasi
Search...

Phylogenomic databases

eggNOGiKOG1703 Eukaryota
ENOG410XRD4 LUCA
GeneTreeiENSGT00940000159536
HOGENOMiHOG000290704
HOVERGENiHBG061371
InParanoidiP50479
OMAiQAYRINI
OrthoDBi840552at2759
PhylomeDBiP50479
TreeFamiTF106408

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

More...
ChiTaRSi
PDLIM4 human
EvolutionaryTraceiP50479

The Gene Wiki collection of pages on human genes and proteins

More...
GeneWikii
PDLIM4

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
8572

Protein Ontology

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PROi
PR:P50479

The Stanford Online Universal Resource for Clones and ESTs

More...
SOURCEi
Search...

Gene expression databases

BgeeiENSG00000131435 Expressed in 195 organ(s), highest expression level in esophagogastric junction muscularis propria
ExpressionAtlasiP50479 baseline and differential
GenevisibleiP50479 HS

Family and domain databases

InterProiView protein in InterPro
IPR031847 DUF4749
IPR001478 PDZ
IPR036034 PDZ_sf
IPR001781 Znf_LIM
PfamiView protein in Pfam
PF15936 DUF4749, 1 hit
PF00412 LIM, 1 hit
PF00595 PDZ, 1 hit
SMARTiView protein in SMART
SM00132 LIM, 1 hit
SM00228 PDZ, 1 hit
SUPFAMiSSF50156 SSF50156, 1 hit
PROSITEiView protein in PROSITE
PS00478 LIM_DOMAIN_1, 1 hit
PS50023 LIM_DOMAIN_2, 1 hit
PS50106 PDZ, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiPDLI4_HUMAN
<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: P50479
Secondary accession number(s): B2R8U1
, Q53Y39, Q96AT8, Q9BTW8, Q9Y292
<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/Swiss-Prot: October 1, 1996
Last sequence update: January 23, 2002
Last modified: February 13, 2019
This is version 166 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 programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

<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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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