Details for: PDLIM4

Gene ID: 8572

Symbol: PDLIM4

Ensembl ID: ENSG00000131435

Description: PDZ and LIM domain 4

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: polychromatophilic erythroblast (CL0000550)
    Fold Change: 180.7834
    Cell Significance Index: -28.1200
  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 110.7460
    Cell Significance Index: -28.0900
  • Cell Name: smooth muscle fiber of ileum (CL1000278)
    Fold Change: 54.2444
    Cell Significance Index: -25.6100
  • Cell Name: ciliated cell of the bronchus (CL0002332)
    Fold Change: 22.6134
    Cell Significance Index: -21.5900
  • Cell Name: stromal cell of bone marrow (CL0010001)
    Fold Change: 7.0881
    Cell Significance Index: -27.9700
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: 5.3215
    Cell Significance Index: 620.1700
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: 3.4986
    Cell Significance Index: 100.2900
  • Cell Name: prostate gland microvascular endothelial cell (CL2000059)
    Fold Change: 3.1941
    Cell Significance Index: 22.9400
  • Cell Name: skeletal muscle myoblast (CL0000515)
    Fold Change: 2.2040
    Cell Significance Index: 23.9600
  • Cell Name: epidermal cell (CL0000362)
    Fold Change: 1.7210
    Cell Significance Index: 3.8800
  • Cell Name: lactocyte (CL0002325)
    Fold Change: 1.6189
    Cell Significance Index: 209.1500
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: 1.4710
    Cell Significance Index: 109.6300
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: 1.2722
    Cell Significance Index: 26.6300
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: 1.2098
    Cell Significance Index: 32.9300
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: 1.1178
    Cell Significance Index: 153.5000
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 1.0848
    Cell Significance Index: 979.5100
  • Cell Name: skeletal muscle satellite stem cell (CL0008011)
    Fold Change: 0.9828
    Cell Significance Index: 10.2600
  • Cell Name: enteric smooth muscle cell (CL0002504)
    Fold Change: 0.9654
    Cell Significance Index: 5.0800
  • Cell Name: epithelial cell of urethra (CL1000296)
    Fold Change: 0.7764
    Cell Significance Index: 4.8100
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.7638
    Cell Significance Index: 75.5600
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 0.7224
    Cell Significance Index: 92.6100
  • Cell Name: hair follicular keratinocyte (CL2000092)
    Fold Change: 0.6937
    Cell Significance Index: 306.6800
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.6702
    Cell Significance Index: 109.0000
  • Cell Name: basal cell of epidermis (CL0002187)
    Fold Change: 0.6453
    Cell Significance Index: 9.8000
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.6243
    Cell Significance Index: 67.9100
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: 0.5175
    Cell Significance Index: 24.3200
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: 0.4668
    Cell Significance Index: 254.9300
  • Cell Name: luminal hormone-sensing cell of mammary gland (CL4033058)
    Fold Change: 0.4249
    Cell Significance Index: 2.6200
  • Cell Name: endothelial cell of venule (CL1000414)
    Fold Change: 0.4172
    Cell Significance Index: 4.7400
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.3605
    Cell Significance Index: 21.6400
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.3019
    Cell Significance Index: 20.8800
  • Cell Name: vascular lymphangioblast (CL0005022)
    Fold Change: 0.2897
    Cell Significance Index: 5.1200
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: 0.2505
    Cell Significance Index: 7.0000
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 0.2502
    Cell Significance Index: 30.7700
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.2128
    Cell Significance Index: 40.4900
  • Cell Name: interstitial cell of ovary (CL0002094)
    Fold Change: 0.0894
    Cell Significance Index: 1.1500
  • Cell Name: endothelial cell of placenta (CL0009092)
    Fold Change: 0.0497
    Cell Significance Index: 0.3000
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: 0.0254
    Cell Significance Index: 0.4300
  • Cell Name: sebum secreting cell (CL0000317)
    Fold Change: 0.0253
    Cell Significance Index: 1.7900
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: 0.0196
    Cell Significance Index: 14.3900
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: 0.0076
    Cell Significance Index: 1.3000
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.0022
    Cell Significance Index: 0.4000
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: 0.0009
    Cell Significance Index: 0.0300
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.0007
    Cell Significance Index: 1.2400
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0092
    Cell Significance Index: -6.8400
  • Cell Name: pancreatic PP cell (CL0002275)
    Fold Change: -0.0092
    Cell Significance Index: -5.7600
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: -0.0127
    Cell Significance Index: -8.0400
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0155
    Cell Significance Index: -28.6500
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0168
    Cell Significance Index: -25.8800
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0269
    Cell Significance Index: -36.5400
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0293
    Cell Significance Index: -22.2100
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0335
    Cell Significance Index: -15.2200
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: -0.0349
    Cell Significance Index: -1.5800
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0356
    Cell Significance Index: -20.0600
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: -0.0357
    Cell Significance Index: -1.0300
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: -0.0380
    Cell Significance Index: -13.6400
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0426
    Cell Significance Index: -8.9700
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: -0.0460
    Cell Significance Index: -9.1300
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0826
    Cell Significance Index: -23.7600
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0859
    Cell Significance Index: -8.7700
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.1032
    Cell Significance Index: -20.7000
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.1273
    Cell Significance Index: -18.5100
  • Cell Name: salivary gland glandular cell (CL1001596)
    Fold Change: -0.1294
    Cell Significance Index: -0.7200
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: -0.1364
    Cell Significance Index: -4.3700
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.1418
    Cell Significance Index: -7.1600
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: -0.1438
    Cell Significance Index: -7.5500
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.1494
    Cell Significance Index: -17.1200
  • Cell Name: Sertoli cell (CL0000216)
    Fold Change: -0.1625
    Cell Significance Index: -2.2800
  • Cell Name: pancreatic endocrine cell (CL0008024)
    Fold Change: -0.1675
    Cell Significance Index: -19.1300
  • Cell Name: neuron associated cell (CL0000095)
    Fold Change: -0.1683
    Cell Significance Index: -6.9000
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: -0.1704
    Cell Significance Index: -3.6300
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: -0.1865
    Cell Significance Index: -4.0400
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.1894
    Cell Significance Index: -8.8300
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.2029
    Cell Significance Index: -12.4400
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: -0.2208
    Cell Significance Index: -26.0400
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.2269
    Cell Significance Index: -17.9700
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.2385
    Cell Significance Index: -24.8300
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.3097
    Cell Significance Index: -17.3800
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: -0.3188
    Cell Significance Index: -16.5600
  • Cell Name: melanocyte of skin (CL1000458)
    Fold Change: -0.3203
    Cell Significance Index: -4.4900
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.3387
    Cell Significance Index: -8.9000
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.3709
    Cell Significance Index: -22.8000
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: -0.3809
    Cell Significance Index: -19.8400
  • Cell Name: keratocyte (CL0002363)
    Fold Change: -0.3895
    Cell Significance Index: -6.1800
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: -0.3946
    Cell Significance Index: -25.4600
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: -0.4017
    Cell Significance Index: -30.8300
  • Cell Name: peg cell (CL4033014)
    Fold Change: -0.4047
    Cell Significance Index: -9.3500
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: -0.4095
    Cell Significance Index: -25.8100
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.4136
    Cell Significance Index: -27.8100
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.4675
    Cell Significance Index: -13.7700
  • Cell Name: oral mucosa squamous cell (CL1001576)
    Fold Change: -0.5016
    Cell Significance Index: -4.3100
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -0.5478
    Cell Significance Index: -20.1100
  • Cell Name: epithelial cell of esophagus (CL0002252)
    Fold Change: -0.5725
    Cell Significance Index: -3.8000
  • Cell Name: skeletal muscle fibroblast (CL0011027)
    Fold Change: -0.5815
    Cell Significance Index: -3.9400
  • Cell Name: mesodermal cell (CL0000222)
    Fold Change: -0.5974
    Cell Significance Index: -3.7400
  • Cell Name: paneth cell of colon (CL0009009)
    Fold Change: -0.5980
    Cell Significance Index: -8.9600
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.6224
    Cell Significance Index: -16.6200
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.6427
    Cell Significance Index: -28.4300
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.6602
    Cell Significance Index: -16.4900
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: -0.6604
    Cell Significance Index: -9.0100

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics** PDLIM4 is a 124-kDa protein composed of two distinct domains: a PDZ (PSD-95/Discs Large/Zonula Occludens-1) domain and a LIM (Lysine-Interacting Motif) domain. The PDZ domain is a protein-protein interaction module that recognizes and binds to specific sequences in target proteins, while the LIM domain is a calcium-binding motif that interacts with other proteins. The combination of these domains confers PDLIM4 with a broad range of functional capabilities. **Pathways and Functions** PDLIM4 is involved in various cellular pathways, including: 1. **Actin cytoskeleton organization**: PDLIM4 interacts with actin-binding proteins, such as alpha-actinin, to regulate the dynamics of the actin cytoskeleton, which is essential for cell migration, division, and shape changes. 2. **Cell adhesion**: The PDZ domain of PDLIM4 binds to specific sequences in cell adhesion molecules, such as N-cadherin, to regulate cell-cell adhesion and the formation of adherens junctions. 3. **Signal transduction**: PDLIM4 interacts with signaling proteins, such as protein phosphatases, to modulate the activity of signaling pathways involved in cell growth, differentiation, and survival. 4. **Muscle structure development**: PDLIM4 is expressed in smooth muscle cells and plays a role in the organization of the actin cytoskeleton and the regulation of muscle contraction. **Clinical Significance** Dysregulation of PDLIM4 has been implicated in various diseases, including: 1. **Muscular dystrophy**: Mutations in the PDLIM4 gene have been associated with muscular dystrophy, a group of genetic disorders characterized by progressive muscle weakness and degeneration. 2. **Cancer**: PDLIM4 has been shown to interact with cancer-related proteins, such as oncogenes and tumor suppressors, and its dysregulation may contribute to cancer progression and metastasis. 3. **Neurological disorders**: PDLIM4 has been implicated in the pathogenesis of neurological disorders, such as Alzheimer's disease and Parkinson's disease, where disruptions in the actin cytoskeleton and cell adhesion may contribute to disease progression. In summary, PDLIM4 is a multifunctional protein that plays a crucial role in various cellular processes, including actin cytoskeleton organization, cell adhesion, and signal transduction. Its dysregulation has been implicated in various diseases, highlighting the importance of further research into the molecular mechanisms underlying PDLIM4's functions.

Genular Protein ID: 3955111830

Symbol: PDLI4_HUMAN

Name: PDZ and LIM domain protein 4

UniProtKB Accession Codes:

P50479 B2R8U1 Q53Y39 Q96AT8 Q9BTW8 Q9Y292

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CDD 2 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 10 Ensembl 2 EvolutionaryTrace 1 ExpressionAtlas 1 GO 25 Gene3D 2 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyGen 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MalaCards 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 3 PDBsum 3 PRO 1 PROSITE 3 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 3 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 2 Pumba 1 RNAct 1 RefSeq 2 SMART 2 SMR 1 STRING 1 SUPFAM 2 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 9573374

Title: The human RIL gene: mapping to human chromosome 5q31.1, genomic organization and alternative transcripts.

PubMed ID: 9573374

DOI: 10.1016/s0378-1119(98)00080-8

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 10826496

Title: The zyxin-related protein TRIP6 interacts with PDZ motifs in the adaptor protein RIL and the protein tyrosine phosphatase PTP-BL.

PubMed ID: 10826496

DOI: 10.1078/s0171-9335(04)70031-x

PubMed ID: 12908099

Title: Association of genetic variation of the RIL gene, encoding a PDZ-LIM domain protein and localized in 5q31.1, with low bone mineral density in adult Japanese women.

PubMed ID: 12908099

DOI: 10.1007/s10038-003-0035-1

PubMed ID: 19307596

Title: Reversion-induced LIM interaction with Src reveals a novel Src inactivation cycle.

PubMed ID: 19307596

DOI: 10.1083/jcb.200810155

PubMed ID: 19369195

Title: Large-scale proteomics analysis of the human kinome.

PubMed ID: 19369195

DOI: 10.1074/mcp.m800588-mcp200

PubMed ID: 21269460

Title: Initial characterization of the human central proteome.

PubMed ID: 21269460

DOI: 10.1186/1752-0509-5-17

PubMed ID: 21636573

Title: Actin cytoskeleton remodeling by the alternatively spliced isoform of PDLIM4/RIL protein.

PubMed ID: 21636573

DOI: 10.1074/jbc.m111.241554

PubMed ID: 21406692

Title: System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation.

PubMed ID: 21406692

DOI: 10.1126/scisignal.2001570

PubMed ID: 23186163

Title: Toward a comprehensive characterization of a human cancer cell phosphoproteome.

PubMed ID: 23186163

DOI: 10.1021/pr300630k

PubMed ID: 24275569

Title: An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome.

PubMed ID: 24275569

DOI: 10.1016/j.jprot.2013.11.014

PubMed ID: 20120020

Title: Unusual binding interactions in PDZ domain crystal structures help explain binding mechanisms.

PubMed ID: 20120020

DOI: 10.1002/pro.349

PubMed ID: 25158098

Title: A structural portrait of the PDZ domain family.

PubMed ID: 25158098

DOI: 10.1016/j.jmb.2014.08.012

Sequence Information:

  • Length: 330
  • Mass: 35398
  • Checksum: 68FCA8FD93700E7B
  • Sequence:
    • MPHSVTLRGP SPWGFRLVGG RDFSAPLTIS RVHAGSKAAL AALCPGDLIQ AINGESTELM 
THLEAQNRIK GCHDHLTLSV SRPEGRSWPS APDDSKAQAH RIHIDPEIQD GSPTTSRRPS 
GTGTGPEDGR PSLGSPYGQP PRFPVPHNGS SEATLPAQMS TLHVSPPPSA DPARGLPRSR 
DCRVDLGSEV YRMLREPAEP VAAEPKQSGS FRYLQGMLEA GEGGDWPGPG GPRNLKPTAS 
KLGAPLSGLQ GLPECTRCGH GIVGTIVKAR DKLYHPECFM CSDCGLNLKQ RGYFFLDERL 
YCESHAKARV KPPEGYDVVA VYPNAKVELV

Genular Protein ID: 3823058429

Symbol: A0A0S2Z4N4_HUMAN

Name: N/A

UniProtKB Accession Codes:

A0A0S2Z4N4

Database IDs:

ARBA 1 AlphaFoldDB 1 Antibodypedia 1 BioGRID-ORCS 1 CDD 1 CTD 1 ChiTaRS 1 DNASU 1 DisGeNET 1 EMBL 2 ExpressionAtlas 1 GO 9 Gene3D 1 InterPro 4 NCBI Taxonomy 1 OrthoDB 1 PANTHER 2 PROSITE 2 Pfam 2 RefSeq 1 SAM 1 SMART 1 SMR 1 SUPFAM 1 VEuPathDB 1

Citations:

PubMed ID: 26871637

Title: Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing.

PubMed ID: 26871637

DOI: 10.1016/j.cell.2016.01.029

Sequence Information:

  • Length: 246
  • Mass: 25854
  • Checksum: 202F54C12328320E
  • Sequence:
    • MPHSVTLRGP SPWGFRLVGG RDFSAPLTIS RVHAGSKAAL AALCPGDLIQ AINGESTELM 
THLEAQNRIK GCHDHLTLSV SRPEGRSWPS APDDSKAQAH RIHIDPEIQD GSPTTSRRPS 
GTGTGPEDGR PSLGSPYGQP PRFPVPHNGS SEATLPAQMS TLHVSPPPSA DPARGLPRSR 
DCRVDLGSEV YRMLREPAEP VAAEPKQSGS FRYLQGMLEA GEGGAPSSRH GTSSTIPSAS 
CAVTAA

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.