PDCD11 (programmed cell death 11)

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Gene miRNA Gene ontology Other IDs Protein Pathways Associated diseases Related genes Diseases linked via similar genes

Gene

• Entrez ID: 22984
• Gene name: Programmed cell death 11
• Gene symbol: PDCD11
• Synonyms (NCBI Gene): ALG-4, ALG4, NFBP, RRP5
• Chromosome: 10
• Chromosome location: 10q24.33
• Summary: PDCD11 is a NF-kappa-B (NFKB1; 164011)-binding protein that colocalizes with U3 RNA (MIM 180710) in the nucleolus and is required for rRNA maturation and generation of 18S rRNA (Sweet et al., 2003 [PubMed 14624448]; Sweet et al., 2008 [PubMed 17654514]).[

miRNA Show/Hide all (185)

miRTarBase ID	miRNA	Experiments	Reference
MIRT027547	hsa-miR-98-5p	Microarray	19088304
MIRT032267	hsa-let-7b-5p	Proteomics	18668040
MIRT032267	hsa-let-7b-5p	CLASH	23622248
MIRT051587	hsa-let-7e-5p	CLASH	23622248
MIRT050784	hsa-miR-17-3p	CLASH	23622248
MIRT040145	hsa-miR-615-3p	CLASH	23622248
MIRT038273	hsa-miR-361-3p	CLASH	23622248
MIRT036204	hsa-miR-320b	CLASH	23622248
MIRT052845	hsa-miR-4286	CLASH	23622248
MIRT655317	hsa-miR-548c-3p	HITS-CLIP	23824327
MIRT655316	hsa-miR-216a-5p	HITS-CLIP	23824327
MIRT655315	hsa-miR-6873-5p	HITS-CLIP	23824327
MIRT655314	hsa-miR-5196-3p	HITS-CLIP	23824327
MIRT655313	hsa-miR-4793-5p	HITS-CLIP	23824327
MIRT655312	hsa-miR-335-3p	HITS-CLIP	23824327
MIRT655317	hsa-miR-548c-3p	HITS-CLIP	23824327
MIRT655316	hsa-miR-216a-5p	HITS-CLIP	23824327
MIRT655315	hsa-miR-6873-5p	HITS-CLIP	23824327
MIRT655314	hsa-miR-5196-3p	HITS-CLIP	23824327
MIRT655313	hsa-miR-4793-5p	HITS-CLIP	23824327
MIRT655312	hsa-miR-335-3p	HITS-CLIP	23824327
MIRT1219185	hsa-let-7a	CLIP-seq
MIRT1219186	hsa-let-7b	CLIP-seq
MIRT1219187	hsa-let-7c	CLIP-seq
MIRT1219188	hsa-let-7d	CLIP-seq
MIRT1219189	hsa-let-7e	CLIP-seq
MIRT1219190	hsa-let-7f	CLIP-seq
MIRT1219191	hsa-let-7g	CLIP-seq
MIRT1219192	hsa-let-7i	CLIP-seq
MIRT1219193	hsa-miR-1200	CLIP-seq
MIRT1219194	hsa-miR-1252	CLIP-seq
MIRT1219195	hsa-miR-132	CLIP-seq
MIRT1219196	hsa-miR-194	CLIP-seq
MIRT1219197	hsa-miR-202	CLIP-seq
MIRT1219198	hsa-miR-212	CLIP-seq
MIRT1219199	hsa-miR-2467-5p	CLIP-seq
MIRT1219200	hsa-miR-3121-3p	CLIP-seq
MIRT1219201	hsa-miR-3188	CLIP-seq
MIRT1219202	hsa-miR-3929	CLIP-seq
MIRT1219203	hsa-miR-3975	CLIP-seq
MIRT1219204	hsa-miR-4316	CLIP-seq
MIRT1219205	hsa-miR-4324	CLIP-seq
MIRT1219206	hsa-miR-4328	CLIP-seq
MIRT1219207	hsa-miR-4419b	CLIP-seq
MIRT1219208	hsa-miR-4458	CLIP-seq
MIRT1219209	hsa-miR-4478	CLIP-seq
MIRT1219210	hsa-miR-4500	CLIP-seq
MIRT1219211	hsa-miR-4649-3p	CLIP-seq
MIRT1219212	hsa-miR-485-5p	CLIP-seq
MIRT1219213	hsa-miR-544b	CLIP-seq
MIRT1219214	hsa-miR-98	CLIP-seq
MIRT2063378	hsa-miR-1207-3p	CLIP-seq
MIRT1219194	hsa-miR-1252	CLIP-seq
MIRT2063379	hsa-miR-1269	CLIP-seq
MIRT2063380	hsa-miR-1269b	CLIP-seq
MIRT2063381	hsa-miR-1288	CLIP-seq
MIRT2063382	hsa-miR-1289	CLIP-seq
MIRT2063383	hsa-miR-185	CLIP-seq
MIRT2063384	hsa-miR-2277-3p	CLIP-seq
MIRT1219199	hsa-miR-2467-5p	CLIP-seq
MIRT2063385	hsa-miR-2861	CLIP-seq
MIRT1219201	hsa-miR-3188	CLIP-seq
MIRT2063386	hsa-miR-3192	CLIP-seq
MIRT2063387	hsa-miR-331-5p	CLIP-seq
MIRT2063388	hsa-miR-3660	CLIP-seq
MIRT2063389	hsa-miR-370	CLIP-seq
MIRT2063390	hsa-miR-378	CLIP-seq
MIRT2063391	hsa-miR-378b	CLIP-seq
MIRT2063392	hsa-miR-378c	CLIP-seq
MIRT2063393	hsa-miR-378d	CLIP-seq
MIRT2063394	hsa-miR-378e	CLIP-seq
MIRT2063395	hsa-miR-378f	CLIP-seq
MIRT2063396	hsa-miR-378h	CLIP-seq
MIRT2063397	hsa-miR-378i	CLIP-seq
MIRT1219202	hsa-miR-3929	CLIP-seq
MIRT1219203	hsa-miR-3975	CLIP-seq
MIRT2063398	hsa-miR-422a	CLIP-seq
MIRT2063399	hsa-miR-4267	CLIP-seq
MIRT2063400	hsa-miR-4306	CLIP-seq
MIRT2063401	hsa-miR-4310	CLIP-seq
MIRT1219204	hsa-miR-4316	CLIP-seq
MIRT1219207	hsa-miR-4419b	CLIP-seq
MIRT1219209	hsa-miR-4478	CLIP-seq
MIRT2063402	hsa-miR-4513	CLIP-seq
MIRT2063403	hsa-miR-4515	CLIP-seq
MIRT2063404	hsa-miR-4526	CLIP-seq
MIRT2063405	hsa-miR-4644	CLIP-seq
MIRT1219211	hsa-miR-4649-3p	CLIP-seq
MIRT2063406	hsa-miR-4685-5p	CLIP-seq
MIRT2063407	hsa-miR-4740-5p	CLIP-seq
MIRT2063408	hsa-miR-4763-5p	CLIP-seq
MIRT2063409	hsa-miR-4802-5p	CLIP-seq
MIRT1219212	hsa-miR-485-5p	CLIP-seq
MIRT2063410	hsa-miR-596	CLIP-seq
MIRT2063411	hsa-miR-766	CLIP-seq
MIRT2291846	hsa-miR-2355-5p	CLIP-seq
MIRT2291847	hsa-miR-3651	CLIP-seq
MIRT2063389	hsa-miR-370	CLIP-seq
MIRT2291848	hsa-miR-4726-3p	CLIP-seq
MIRT2456044	hsa-miR-298	CLIP-seq
MIRT2456045	hsa-miR-4436b-3p	CLIP-seq
MIRT2456046	hsa-miR-4509	CLIP-seq
MIRT2456044	hsa-miR-298	CLIP-seq
MIRT2456045	hsa-miR-4436b-3p	CLIP-seq
MIRT2456046	hsa-miR-4509	CLIP-seq
MIRT2589512	hsa-miR-103a	CLIP-seq
MIRT2589513	hsa-miR-107	CLIP-seq
MIRT2589514	hsa-miR-1286	CLIP-seq
MIRT2589515	hsa-miR-140-3p	CLIP-seq
MIRT2589516	hsa-miR-15a	CLIP-seq
MIRT2589517	hsa-miR-15b	CLIP-seq
MIRT2589518	hsa-miR-16	CLIP-seq
MIRT2589519	hsa-miR-1915	CLIP-seq
MIRT2589520	hsa-miR-195	CLIP-seq
MIRT2063384	hsa-miR-2277-3p	CLIP-seq
MIRT2291846	hsa-miR-2355-5p	CLIP-seq
MIRT2456044	hsa-miR-298	CLIP-seq
MIRT1219200	hsa-miR-3121-3p	CLIP-seq
MIRT2589521	hsa-miR-3158-5p	CLIP-seq
MIRT2589522	hsa-miR-3167	CLIP-seq
MIRT2589523	hsa-miR-330-3p	CLIP-seq
MIRT2291847	hsa-miR-3651	CLIP-seq
MIRT2589524	hsa-miR-3679-3p	CLIP-seq
MIRT2589525	hsa-miR-3943	CLIP-seq
MIRT2589526	hsa-miR-424	CLIP-seq
MIRT2063401	hsa-miR-4310	CLIP-seq
MIRT2589527	hsa-miR-4323	CLIP-seq
MIRT2589528	hsa-miR-4700-3p	CLIP-seq
MIRT2589529	hsa-miR-4722-3p	CLIP-seq
MIRT2589530	hsa-miR-4725-5p	CLIP-seq
MIRT2589531	hsa-miR-4732-3p	CLIP-seq
MIRT2589532	hsa-miR-4749-3p	CLIP-seq
MIRT2589533	hsa-miR-4755-3p	CLIP-seq
MIRT2063408	hsa-miR-4763-5p	CLIP-seq
MIRT2589534	hsa-miR-497	CLIP-seq
MIRT2589535	hsa-miR-504	CLIP-seq
MIRT2063410	hsa-miR-596	CLIP-seq
MIRT2589536	hsa-miR-876-5p	CLIP-seq
MIRT1219185	hsa-let-7a	CLIP-seq
MIRT1219186	hsa-let-7b	CLIP-seq
MIRT1219187	hsa-let-7c	CLIP-seq
MIRT1219188	hsa-let-7d	CLIP-seq
MIRT1219189	hsa-let-7e	CLIP-seq
MIRT1219190	hsa-let-7f	CLIP-seq
MIRT1219191	hsa-let-7g	CLIP-seq
MIRT1219192	hsa-let-7i	CLIP-seq
MIRT2589512	hsa-miR-103a	CLIP-seq
MIRT2589513	hsa-miR-107	CLIP-seq
MIRT1219193	hsa-miR-1200	CLIP-seq
MIRT2589514	hsa-miR-1286	CLIP-seq
MIRT1219195	hsa-miR-132	CLIP-seq
MIRT2589515	hsa-miR-140-3p	CLIP-seq
MIRT2589516	hsa-miR-15a	CLIP-seq
MIRT2589517	hsa-miR-15b	CLIP-seq
MIRT2589518	hsa-miR-16	CLIP-seq
MIRT1219196	hsa-miR-194	CLIP-seq
MIRT2589520	hsa-miR-195	CLIP-seq
MIRT1219197	hsa-miR-202	CLIP-seq
MIRT1219198	hsa-miR-212	CLIP-seq
MIRT2063384	hsa-miR-2277-3p	CLIP-seq
MIRT2291846	hsa-miR-2355-5p	CLIP-seq
MIRT2456044	hsa-miR-298	CLIP-seq
MIRT1219200	hsa-miR-3121-3p	CLIP-seq
MIRT2589521	hsa-miR-3158-5p	CLIP-seq
MIRT2589522	hsa-miR-3167	CLIP-seq
MIRT2589523	hsa-miR-330-3p	CLIP-seq
MIRT2291847	hsa-miR-3651	CLIP-seq
MIRT2589524	hsa-miR-3679-3p	CLIP-seq
MIRT2589526	hsa-miR-424	CLIP-seq
MIRT2063401	hsa-miR-4310	CLIP-seq
MIRT1219205	hsa-miR-4324	CLIP-seq
MIRT1219208	hsa-miR-4458	CLIP-seq
MIRT1219210	hsa-miR-4500	CLIP-seq
MIRT2589528	hsa-miR-4700-3p	CLIP-seq
MIRT2589529	hsa-miR-4722-3p	CLIP-seq
MIRT2589530	hsa-miR-4725-5p	CLIP-seq
MIRT2589531	hsa-miR-4732-3p	CLIP-seq
MIRT2589533	hsa-miR-4755-3p	CLIP-seq
MIRT2063408	hsa-miR-4763-5p	CLIP-seq
MIRT2589534	hsa-miR-497	CLIP-seq
MIRT2589535	hsa-miR-504	CLIP-seq
MIRT1219213	hsa-miR-544b	CLIP-seq
MIRT2063410	hsa-miR-596	CLIP-seq
MIRT2589536	hsa-miR-876-5p	CLIP-seq
MIRT1219214	hsa-miR-98	CLIP-seq

Gene ontology (GO) Show/Hide all (14)

GO ID	Ontology	Definition	Evidence	Reference
GO:0003676	Function	Nucleic acid binding	IEA
GO:0003723	Function	RNA binding	HDA	22658674, 22681889
GO:0003723	Function	RNA binding	IBA
GO:0005515	Function	Protein binding	IPI	14624448
GO:0005634	Component	Nucleus	IDA	14624448
GO:0005634	Component	Nucleus	IEA
GO:0005654	Component	Nucleoplasm	TAS
GO:0005730	Component	Nucleolus	IBA
GO:0005730	Component	Nucleolus	IEA
GO:0005829	Component	Cytosol	IEA
GO:0006364	Process	RRNA processing	IEA
GO:0006396	Process	RNA processing	IEA
GO:0032040	Component	Small-subunit processome	IBA
GO:0051059	Function	NF-kappaB binding	IPI	14624448

Other IDs

• MIM: 612333
• HGNC: 13408
• e!Ensembl: ENSG00000148843

Protein

• UniProt ID: Q14690
• Protein name: Protein RRP5 homolog (NF-kappa-B-binding protein) (NFBP) (Programmed cell death protein 11)
• Protein function: Essential for the generation of mature 18S rRNA, specifically necessary for cleavages at sites A0, 1 and 2 of the 47S precursor. Directly interacts with U3 snoRNA. ; Involved in the biogenesis of rRNA. {EC
• PDB: 1WI5
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00575	S1	540 → 611	S1 RNA binding domain	Domain
  PF00575	S1	449 → 522	S1 RNA binding domain	Domain
  PF00575	S1	726 → 798	S1 RNA binding domain	Domain
  PF00575	S1	1032 → 1100	S1 RNA binding domain	Domain
  PF05843	Suf	1725 → 1870	Suppressor of forked protein (Suf)	Family

• Sequence:

  MANLEESFPRGGTRKIHKPEKAFQQSVEQDNLFDISTEEGSTKRKKSQKGPAKTKKLKIE
  KRESSKSAREKFEILSVESLCEGMRILGCVKEVNELELVISLPNGLQGFVQVTEICDAYT
  KKLNEQVTQEQPLKDLLHLPELFSPGMLVRCVVSSLGITDRGKKSVKLSLNPKNVNRVLS
  AEALKPGMLLTGTVSSLEDHGYLVDIGVDGTRAFLPLLKAQEYIRQKNKGAKLKVGQYLN
  CIVEKVKGNGGVVSLSVGHSEVSTAIATEQQSWNLNNLLPGLVVKAQVQKVTPFGLTLNF
  LTFFTGVVDFMHLDPKKAGTYFSNQAVRACILCVHPRTRVVHLSLRPIFLQPGRPLTRLS
  CQNLGAVLDDVPVQGFFKKAGATFRLKDGVLAYARLSHLSDSKNVFNPEAFKPGNTHKCR
  IIDYSQMDELALLSLRTSIIEAQYLRYHDIEPGAVVKGTVLTIKSYGMLVKVGEQMRGLV
  PPMHLADILMKNPEKKYHIGDEVKCRVLLCDPEAKKLMMTLKKTLIESKLPVITCYADAK
  PGLQTHGFIIRVKDYGCIVKFYNNVQGLVPKHELSTEYIPDPERVFYTGQVVKVVVLNCE
  PSKERMLLSFKLSSDPEPKKEPAGHSQKKGKAINIGQLVDVKVLEKTKDGLEVAVLPHNI
  RAFLPTSHLSDHVANGPLLHHWLQAGDILHRVLCLSQSEGRVLLCRKPALVSTVEGGQDP
  KNFSEIHPGMLLIGFVKSIKDYGVFIQFPSGLSGLAPKAIMSDKFVTSTSDHFVEGQTVA
  AKVTNVDEEKQRMLLSLRLSDCGLGDLAITSLLLLNQCLEELQGVRSLMSNRDSVLIQTL
  AEMTPGMFLDLVVQEVLEDGSVVFSGGPVPDLVLKASRYHRAGQEVESGQKKKVVILNVD
  LLKLEVHVSLHQDLVNRKARKLRKGSEHQAIVQHLEKSFAIASLVETGHLAAFSLTSHLN
  DTFRFDSEKLQVGQGVSLTLKTTEPGVTGLLLAVEGPAAKRTMRPTQKDSETVDEDEEVD
  PALTVGTIKKHTLSIGDMVTGTVKSIKPTHVVVTLEDGIIGCIHASHILDDVPEGTSPTT
  KLKVGKTVTARVIGGRDMKTFKYLPISHPRFVRTIPELSVRPSELEDGHTALNTHSVSPM
  EKIKQYQAGQTVTCFLKKYNVVKKWLEVEIAPDIRGRIPLLLTSLSFKVLKHPDKKFRVG
  QALRATVVGPDSSKTLLCLSLTGPHKLEEGEVAMGRVVKVTPNEGLTVSFPFGKIGTVSI
  FHMSDSYSETPLEDFVPQKVVRCYILSTADNVLTLSLRSSRTNPETKSKVEDPEINSIQD
  IKEGQLLRGYVGSIQPHGVFFRLGPSVVGLARYSHVSQHSPSKKALYNKHLPEGKLLTAR
  VLRLNHQKNLVELSFLPGDTGKPDVLSASLEGQLTKQEERKTEAEERDQKGEKKNQKRNE
  KKNQKGQEEVEMPSKEKQQPQKPQAQKRGGRECRESGSEQERVSKKPKKAGLSEEDDSLV
  DVYYREGKEEAEETNVLPKEKQTKPAEAPRLQLSSGFAWNVGLDSLTPALPPLAESSDSE
  EDEKPHQATIKKSKKERELEKQKAEKELSRIEEALMDPGRQPESADDFDRLVLSSPNSSI
  LWLQYMAFHLQATEIEKARAVAERALKTISFREEQEKLNVWVALLNLENMYGSQESLTKV
  FERAVQYNEPLKVFLHLADIYAKSEKFQEAGELYNRMLKRFRQEKAVWIKYGAFLLRRSQ
  AAASHRVLQRALECLPSKEHVDVIAKFAQLEFQLGDAERAKAIFENTLSTYPKRTDVWSV
  YIDMTIKHGSQKDVRDIFERVIHLSLAPKRMKFFFKRYLDYEKQHGTEKDVQAVKAKALE
  YVEAKSSVLED

• Sequence length: 1871

Pathways

Reactome Pathway:

Major pathway of rRNA processing in the nucleolus and cytosol

Associated diseases

Evidence Score:

• ★☆☆☆☆  Gene-disease association found in Text Mining only
• ★★☆☆☆  Found in Text Mining and Unknown/Other Associations
• ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources
• ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants)
• ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)

Unknown / Other Associations
Phenotype Name	Clinical Significance	Source	Reference	Evidence Score
EBV-positive nodal T- and NK-cell lymphoma	Uncertain significance	ClinVar	—	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
INSOMNIA	—	GWAS catalog	35835914	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
UTERINE FIBROID	—	GWAS catalog	40050615	★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Associations from Text Mining Show/Hide Text Mining Associations (8)
Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Cerebrovascular accident	Stroke	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only
Diabetes	Diabetes	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only
Diabetes Mellitus	Diabetes Mellitus	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only
Hypertensive disease	Hypertension	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only
Lymphoma, T-Cell, Cutaneous	Lymphoma	BEFREE	31056253		★☆☆☆☆ Found in Text Mining only
Schizophrenia	Schizophrenia	BEFREE	28657695		★☆☆☆☆ Found in Text Mining only
Transient Cerebral Ischemia	Cerebral Ischemia	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only
Transient Ischemic Attack	Transient Ischemic Attack	BEFREE	29507658		★☆☆☆☆ Found in Text Mining only

Related Genes

No strongly related genes found yet for PDCD11.

Diseases Linked via Similar Genes

No additional diseases found yet through genes similar to PDCD11.