Details for: PDCD1

Gene ID: 5133

Symbol: PDCD1

Ensembl ID: ENSG00000188389

Description: programmed cell death 1

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: transit amplifying cell of small intestine (CL0009012)
    Fold Change: 11.7853
    Cell Significance Index: 244.4800
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: 5.0414
    Cell Significance Index: 161.4700
  • Cell Name: BEST4+ enteroycte (CL4030026)
    Fold Change: 3.6199
    Cell Significance Index: 54.5500
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 2.4617
    Cell Significance Index: 70.9300
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 2.4147
    Cell Significance Index: 109.4500
  • Cell Name: fallopian tube secretory epithelial cell (CL4030006)
    Fold Change: 2.2234
    Cell Significance Index: 34.4000
  • Cell Name: CD8-positive, alpha-beta regulatory T cell (CL0000795)
    Fold Change: 1.2730
    Cell Significance Index: -3.9100
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: 1.1591
    Cell Significance Index: 28.9800
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: 0.9762
    Cell Significance Index: 13.9800
  • Cell Name: DN1 thymic pro-T cell (CL0000894)
    Fold Change: 0.9240
    Cell Significance Index: 9.5800
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.8427
    Cell Significance Index: 137.0500
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.8277
    Cell Significance Index: 49.6900
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.6229
    Cell Significance Index: 13.2700
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.4525
    Cell Significance Index: 44.7600
  • Cell Name: CD4-positive, alpha-beta memory T cell, CD45RO-positive (CL0001204)
    Fold Change: 0.3448
    Cell Significance Index: 10.1300
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: 0.3129
    Cell Significance Index: 8.3700
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.2277
    Cell Significance Index: 24.7700
  • Cell Name: T follicular regulatory cell (CL0009113)
    Fold Change: 0.1624
    Cell Significance Index: 0.4000
  • Cell Name: hepatoblast (CL0005026)
    Fold Change: 0.1136
    Cell Significance Index: 1.9100
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.1084
    Cell Significance Index: 20.6300
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.0768
    Cell Significance Index: 5.3100
  • Cell Name: eukaryotic cell (CL0000255)
    Fold Change: -0.0005
    Cell Significance Index: -0.0200
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: -0.0016
    Cell Significance Index: -3.0900
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0034
    Cell Significance Index: -6.2900
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0034
    Cell Significance Index: -5.2200
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0046
    Cell Significance Index: -3.3900
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0050
    Cell Significance Index: -6.7400
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0061
    Cell Significance Index: -3.4600
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0070
    Cell Significance Index: -5.2800
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: -0.0072
    Cell Significance Index: -1.4300
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: -0.0078
    Cell Significance Index: -0.9200
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.0082
    Cell Significance Index: -0.4100
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0085
    Cell Significance Index: -6.2400
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: -0.0095
    Cell Significance Index: -5.1800
  • Cell Name: neuron associated cell (CL0000095)
    Fold Change: -0.0098
    Cell Significance Index: -0.4000
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: -0.0101
    Cell Significance Index: -6.4300
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: -0.0135
    Cell Significance Index: -4.8400
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0140
    Cell Significance Index: -6.3600
  • Cell Name: DN3 thymocyte (CL0000807)
    Fold Change: -0.0170
    Cell Significance Index: -0.1700
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0193
    Cell Significance Index: -5.5500
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0203
    Cell Significance Index: -3.4700
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.0280
    Cell Significance Index: -5.6100
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: -0.0295
    Cell Significance Index: -5.3200
  • Cell Name: odontoblast (CL0000060)
    Fold Change: -0.0315
    Cell Significance Index: -4.0400
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0330
    Cell Significance Index: -4.7900
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: -0.0332
    Cell Significance Index: -0.7200
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: -0.0407
    Cell Significance Index: -5.5900
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0427
    Cell Significance Index: -4.8900
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: -0.0457
    Cell Significance Index: -5.6200
  • Cell Name: lactocyte (CL0002325)
    Fold Change: -0.0527
    Cell Significance Index: -6.8100
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0546
    Cell Significance Index: -5.5800
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: -0.0627
    Cell Significance Index: -4.8100
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.0712
    Cell Significance Index: -3.3500
  • Cell Name: leukocyte (CL0000738)
    Fold Change: -0.0765
    Cell Significance Index: -1.3000
  • Cell Name: hematopoietic cell (CL0000988)
    Fold Change: -0.0786
    Cell Significance Index: -1.1500
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.0819
    Cell Significance Index: -6.4900
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: -0.0834
    Cell Significance Index: -2.3300
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.0900
    Cell Significance Index: -5.5200
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: -0.0924
    Cell Significance Index: -6.8900
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: -0.0939
    Cell Significance Index: -6.0600
  • Cell Name: lymphocyte (CL0000542)
    Fold Change: -0.0981
    Cell Significance Index: -1.3400
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: -0.1105
    Cell Significance Index: -5.7400
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.1160
    Cell Significance Index: -6.5100
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.1227
    Cell Significance Index: -5.7200
  • Cell Name: T cell (CL0000084)
    Fold Change: -0.1245
    Cell Significance Index: -1.4700
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.1436
    Cell Significance Index: -6.3500
  • Cell Name: mature alpha-beta T cell (CL0000791)
    Fold Change: -0.1485
    Cell Significance Index: -0.8100
  • Cell Name: CD14-low, CD16-positive monocyte (CL0002396)
    Fold Change: -0.1544
    Cell Significance Index: -3.7400
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -0.1617
    Cell Significance Index: -5.9400
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: -0.1674
    Cell Significance Index: -6.3400
  • Cell Name: CD4-positive, alpha-beta memory T cell (CL0000897)
    Fold Change: -0.1698
    Cell Significance Index: -1.6300
  • Cell Name: slow muscle cell (CL0000189)
    Fold Change: -0.1742
    Cell Significance Index: -2.6100
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: -0.1885
    Cell Significance Index: -5.0500
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.1902
    Cell Significance Index: -6.6100
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.1978
    Cell Significance Index: -5.2000
  • Cell Name: monocyte-derived dendritic cell (CL0011031)
    Fold Change: -0.2002
    Cell Significance Index: -3.4400
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.2052
    Cell Significance Index: -5.4800
  • Cell Name: pro-T cell (CL0000827)
    Fold Change: -0.2063
    Cell Significance Index: -5.2700
  • Cell Name: lens fiber cell (CL0011004)
    Fold Change: -0.2106
    Cell Significance Index: -6.6600
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.2108
    Cell Significance Index: -6.2100
  • Cell Name: mature T cell (CL0002419)
    Fold Change: -0.2140
    Cell Significance Index: -1.5400
  • Cell Name: CD8-positive, alpha-beta T cell (CL0000625)
    Fold Change: -0.2162
    Cell Significance Index: -2.0500
  • Cell Name: medium spiny neuron (CL1001474)
    Fold Change: -0.2186
    Cell Significance Index: -2.9500
  • Cell Name: CD4-positive, alpha-beta T cell (CL0000624)
    Fold Change: -0.2202
    Cell Significance Index: -2.0600
  • Cell Name: neural progenitor cell (CL0011020)
    Fold Change: -0.2284
    Cell Significance Index: -2.2600
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.2318
    Cell Significance Index: -5.7900
  • Cell Name: common myeloid progenitor (CL0000049)
    Fold Change: -0.2337
    Cell Significance Index: -2.7500
  • Cell Name: caudal ganglionic eminence derived cortical interneuron (CL4023064)
    Fold Change: -0.2347
    Cell Significance Index: -4.6800
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.2400
    Cell Significance Index: -6.8800
  • Cell Name: obsolete epithelial cell of alveolus of lung (CL0010003)
    Fold Change: -0.2414
    Cell Significance Index: -6.0200
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.2496
    Cell Significance Index: -6.3600
  • Cell Name: lamp5 GABAergic cortical interneuron (CL4023011)
    Fold Change: -0.2527
    Cell Significance Index: -5.4600
  • Cell Name: type I muscle cell (CL0002211)
    Fold Change: -0.2531
    Cell Significance Index: -6.1800
  • Cell Name: peg cell (CL4033014)
    Fold Change: -0.2541
    Cell Significance Index: -5.8700
  • Cell Name: hematopoietic stem cell (CL0000037)
    Fold Change: -0.2583
    Cell Significance Index: -4.4200
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.2610
    Cell Significance Index: -5.5400
  • Cell Name: chandelier pvalb GABAergic cortical interneuron (CL4023036)
    Fold Change: -0.2630
    Cell Significance Index: -5.4900
  • Cell Name: endothelial cell of venule (CL1000414)
    Fold Change: -0.2638
    Cell Significance Index: -3.0000
  • Cell Name: T follicular helper cell (CL0002038)
    Fold Change: -0.2678
    Cell Significance Index: -2.8400
  • Cell Name: proerythroblast (CL0000547)
    Fold Change: -0.2680
    Cell Significance Index: -3.8400

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:** PDCD1 is a type I transmembrane protein, consisting of an extracellular domain, a transmembrane region, and an intracellular domain. The extracellular domain of PDCD1 binds to its ligands, PD-L1 and PD-L2, which are expressed on the surface of various cells, including tumor cells, antigen-presenting cells, and activated T cells. This binding induces a conformational change in PDCD1, leading to the recruitment of inhibitory kinases and the suppression of T-cell activation and proliferation. **Pathways and Functions:** PDCD1 is involved in several key pathways that regulate the adaptive immune response: 1. **Negative regulation of T-cell activation and proliferation**: PDCD1 acts as a negative regulator of T-cell activation and proliferation by binding to its ligands and inducing the recruitment of inhibitory kinases, which phosphorylate and activate downstream signaling molecules, such as SHP-1 and SHP-2. 2. **Regulation of immune response**: PDCD1 regulates the immune response by modulating the activity of various immune cells, including T cells, B cells, and dendritic cells. 3. **Apoptosis regulation**: PDCD1 is also involved in the regulation of apoptosis in T cells, preventing excessive cell death and maintaining immune homeostasis. **Clinical Significance:** PDCD1 has been implicated in various diseases, including: 1. **Cancer**: PDCD1 is overexpressed in various types of cancer, including melanoma, lung cancer, and renal cell carcinoma. The expression of PDCD1 has been associated with poor prognosis and reduced survival rates. 2. **Infectious diseases**: PDCD1 has been implicated in the regulation of immune responses to viral infections, such as SARS-CoV and HIV. 3. **Autoimmune diseases**: PDCD1 has been associated with autoimmune diseases, such as multiple sclerosis and type 1 diabetes, where dysregulation of PDCD1 contributes to the development and progression of disease. **Therapeutic Potential:** The dysregulation of PDCD1 has led to the development of novel therapeutic strategies, including: 1. **PD-1 inhibitors**: PD-1 inhibitors, such as pembrolizumab and nivolumab, have been approved for the treatment of various cancers, including melanoma and lung cancer. 2. **Vaccines**: Vaccines targeting PDCD1 have been developed to prevent infections and autoimmune diseases. In conclusion, PDCD1 is a critical checkpoint molecule that regulates the adaptive immune response, preventing excessive immune activation and maintaining immune homeostasis. Dysregulation of PDCD1 has been implicated in various diseases, including cancer and infectious diseases, and has led to the development of novel therapeutic strategies. Further research is needed to fully understand the role of PDCD1 in regulating the immune response and to develop effective treatments for diseases associated with PDCD1 dysregulation.

Genular Protein ID: 1461436980

Symbol: PDCD1_HUMAN

Name: N/A

UniProtKB Accession Codes:

Q15116 O00517 Q8IX89

Database IDs:

ABCD 1 AGR 1 AlphaFoldDB 1 Antibodypedia 1 BMRB 1 Bgee 1 BindingDB 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CPTC 1 CTD 1 ChEMBL 1 ChiTaRS 1 DIP 1 DMDM 1 DNASU 1 DisGeNET 1 DrugBank 18 DrugCentral 1 EMBL 8 Ensembl 2 EvolutionaryTrace 1 ExpressionAtlas 1 GO 15 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyCosmos 1 GlyGen 1 GuidetoPHARMACOLOGY 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 6 KEGG 1 MANE-Select 1 MIM 3 MINT 1 MalaCards 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 Orphanet 1 OrthoDB 1 PANTHER 2 PDB 34 PDBsum 34 PIR 1 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 RNAct 1 Reactome 2 RefSeq 1 SIGNOR 1 SMART 2 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TCDB 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 7851902

Title: Structure and chromosomal localization of the human PD-1 gene (PDCD1).

PubMed ID: 7851902

DOI: 10.1006/geno.1994.1562

PubMed ID: 9332365

Title: The human PD-1 gene: complete cDNA, genomic organization, and developmentally regulated expression in B cell progenitors.

PubMed ID: 9332365

DOI: 10.1016/s0378-1119(97)00260-6

PubMed ID: 12402038

Title: A regulatory polymorphism in PDCD1 is associated with susceptibility to systemic lupus erythematosus in humans.

PubMed ID: 12402038

DOI: 10.1038/ng1020

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: 21276005

Title: The role of the PD-1 pathway in autoimmunity and peripheral tolerance.

PubMed ID: 21276005

DOI: 10.1111/j.1749-6632.2010.05919.x

PubMed ID: 22658127

Title: Safety, activity, and immune correlates of anti-PD-1 antibody in cancer.

PubMed ID: 22658127

DOI: 10.1056/nejmoa1200690

PubMed ID: 25034862

Title: Anti-programmed-death-receptor-1 treatment with pembrolizumab in ipilimumab-refractory advanced melanoma: a randomised dose-comparison cohort of a phase 1 trial.

PubMed ID: 25034862

DOI: 10.1016/s0140-6736(14)60958-2

PubMed ID: 25399552

Title: Nivolumab in previously untreated melanoma without BRAF mutation.

PubMed ID: 25399552

DOI: 10.1056/nejmoa1412082

PubMed ID: 30487606

Title: FBXO38 mediates PD-1 ubiquitination and regulates anti-tumour immunity of T cells.

PubMed ID: 30487606

DOI: 10.1038/s41586-018-0756-0

PubMed ID: 28951311

Title: PD-1 pathway and its clinical application: A 20year journey after discovery of the complete human PD-1 gene.

PubMed ID: 28951311

DOI: 10.1016/j.gene.2017.09.050

PubMed ID: 23417675

Title: Structure and interactions of the human programmed cell death 1 receptor.

PubMed ID: 23417675

DOI: 10.1074/jbc.m112.448126

PubMed ID: 26602187

Title: Structure of the complex of human programmed death 1, PD-1, and its ligand PD-L1.

PubMed ID: 26602187

DOI: 10.1016/j.str.2015.09.010

PubMed ID: 27734966

Title: High-resolution crystal structure of the therapeutic antibody pembrolizumab bound to the human PD-1.

PubMed ID: 27734966

DOI: 10.1038/srep35297

PubMed ID: 27618663

Title: Structure and Dynamics of PD-L1 and an Ultra-High-Affinity PD-1 Receptor Mutant.

PubMed ID: 27618663

DOI: 10.1016/j.str.2016.06.026

PubMed ID: 27325296

Title: Structural basis for blocking PD-1-mediated immune suppression by therapeutic antibody pembrolizumab.

PubMed ID: 27325296

DOI: 10.1038/cr.2016.77

PubMed ID: 28165004

Title: An unexpected N-terminal loop in PD-1 dominates binding by nivolumab.

PubMed ID: 28165004

DOI: 10.1038/ncomms14369

Sequence Information:

  • Length: 288
  • Mass: 31647
  • Checksum: A5210FD40C304FB7
  • Sequence:
    • MQIPQAPWPV VWAVLQLGWR PGWFLDSPDR PWNPPTFSPA LLVVTEGDNA TFTCSFSNTS 
ESFVLNWYRM SPSNQTDKLA AFPEDRSQPG QDCRFRVTQL PNGRDFHMSV VRARRNDSGT 
YLCGAISLAP KAQIKESLRA ELRVTERRAE VPTAHPSPSP RPAGQFQTLV VGVVGGLLGS 
LVLLVWVLAV ICSRAARGTI GARRTGQPLK EDPSAVPVFS VDYGELDFQW REKTPEPPVP 
CVPEQTEYAT IVFPSGMGTS SPARRGSADG PRSAQPLRPE DGHCSWPL

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.