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Aliases for PDCD11 Gene

Aliases for PDCD11 Gene

  • Programmed Cell Death 11 2 3
  • NFBP 3 4 6
  • Programmed Cell Death Protein 11 3 4
  • NF-Kappa-B-Binding Protein 3 4
  • KIAA0185 4 6
  • ALG4 3 6
  • Apoptosis-Linked Gene 4 3
  • Protein RRP5 Homolog 3
  • ALG-4 3
  • RRP5 3

External Ids for PDCD11 Gene

Summaries for PDCD11 Gene

Entrez Gene Summary for PDCD11 Gene

  • 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]).[supplied by OMIM, Oct 2008]

GeneCards Summary for PDCD11 Gene

PDCD11 (Programmed Cell Death 11) is a Protein Coding gene. Diseases associated with PDCD11 include epididymo-orchitis and orchitis. GO annotations related to this gene include RNA binding and transcription factor binding.

UniProtKB/Swiss-Prot for PDCD11 Gene

  • 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.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDCD11 Gene

Genomics for PDCD11 Gene

Genomic Location for PDCD11 Gene

Start:
103,396,630 bp from pter
End:
103,446,295 bp from pter
Size:
49,666 bases
Orientation:
Plus strand

Genomic View for PDCD11 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PDCD11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDCD11 Gene

Regulatory Elements for PDCD11 Gene

Proteins for PDCD11 Gene

  • Protein details for PDCD11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14690-RRP5_HUMAN
    Recommended name:
    Protein RRP5 homolog
    Protein Accession:
    Q14690
    Secondary Accessions:
    • Q2TA92
    • Q5W093
    • Q6P2J3
    • Q86VQ8
    • Q9H4P1

    Protein attributes for PDCD11 Gene

    Size:
    1871 amino acids
    Molecular mass:
    208701 Da
    Quaternary structure:
    • Interacts with NF-kappa-B p50/NFKB1 and NF-kappa-B p65/RELA.
    SequenceCaution:
    • Sequence=AAG01992.1; Type=Erroneous translation; Note=Wrong choice of frame.; Evidence={ECO:0000305}; Sequence=AAH49838.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAH64486.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAH80560.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAI11041.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=BAA11502.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PDCD11 Gene

neXtProt entry for PDCD11 Gene

Proteomics data for PDCD11 Gene at MOPED

Post-translational modifications for PDCD11 Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys219 and Lys1781

Other Protein References for PDCD11 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PDCD11 Gene

Domains for PDCD11 Gene

UniProtKB/Swiss-Prot:

RRP5_HUMAN
Domain:
  • Contains 12 S1 motif domains.:
    • Q14690
Similarity:
  • Contains 4 HAT repeats.:
    • Q14690
genes like me logo Genes that share domains with PDCD11: view

No data available for Gene Families for PDCD11 Gene

Function for PDCD11 Gene

Molecular function for PDCD11 Gene

UniProtKB/Swiss-Prot 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.
UniProtKB/Swiss-Prot Function: Involved in the biogenesis of rRNA.

Gene Ontology (GO) - Molecular Function for PDCD11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding --
GO:0005515 protein binding IPI 14624448
GO:0008134 transcription factor binding IPI 14624448
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with PDCD11: view
genes like me logo Genes that share phenotypes with PDCD11: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for PDCD11 Gene

Localization for PDCD11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDCD11 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PDCD11 Gene COMPARTMENTS Subcellular localization image for PDCD11 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for PDCD11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular --
GO:0005634 nucleus IDA 14624448
GO:0005730 nucleolus IBA --
GO:0005829 cytosol IEA --
GO:0032040 small-subunit processome IBA --
genes like me logo Genes that share ontologies with PDCD11: view

Pathways for PDCD11 Gene

SuperPathways for PDCD11 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PDCD11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
GO:0000466 maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA --
GO:0006364 rRNA processing --
GO:0006396 RNA processing --
GO:0006397 mRNA processing IEA --
genes like me logo Genes that share ontologies with PDCD11: view

No data available for Pathways by source for PDCD11 Gene

Transcripts for PDCD11 Gene

mRNA/cDNA for PDCD11 Gene

(5) REFSEQ mRNAs :
(10) Additional mRNA sequences :
(6) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PDCD11 Gene

Programmed cell death 11:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PDCD11 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18 ^
SP1:
SP2:
SP3:
SP4: -
SP5: -
SP6:
SP7: - -
SP8:
SP9:
SP10:

ExUns: 19 ^ 20 ^ 21 ^ 22 ^ 23a · 23b ^ 24 ^ 25a · 25b ^ 26a · 26b ^ 27a · 27b ^ 28 ^ 29 ^ 30 ^ 31 ^ 32 ^ 33 ^ 34
SP1: - - -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for PDCD11 Gene

GeneLoc Exon Structure for
PDCD11
ECgene alternative splicing isoforms for
PDCD11

Expression for PDCD11 Gene

mRNA expression in normal human tissues for PDCD11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for PDCD11 Gene

SOURCE GeneReport for Unigene cluster for PDCD11 Gene Hs.239499

genes like me logo Genes that share expressions with PDCD11: view

Orthologs for PDCD11 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PDCD11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDCD11 36
  • 99.5 (n)
  • 99.31 (a)
PDCD11 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PDCD11 36
  • 87.03 (n)
  • 85.17 (a)
PDCD11 37
  • 85 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PDCD11 36
  • 88.12 (n)
  • 88.21 (a)
PDCD11 37
  • 88 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pdcd11 36
  • 82.96 (n)
  • 81.9 (a)
Pdcd11 16
Pdcd11 37
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PDCD11 37
  • 65 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 78 (a)
OneToMany
-- 37
  • 58 (a)
OneToMany
-- 37
  • 62 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Pdcd11 36
  • 82.85 (n)
  • 81.28 (a)
chicken
(Gallus gallus)
Aves PDCD11 36
  • 62.82 (n)
  • 58.21 (a)
PDCD11 37
  • 57 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDCD11 37
  • 55 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pdcd11 36
  • 58.72 (n)
  • 52.06 (a)
zebrafish
(Danio rerio)
Actinopterygii pdcd11 36
  • 54.77 (n)
  • 45.21 (a)
pdcd11 37
  • 44 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG5728 37
  • 25 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea let-716 37
  • 23 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRP5 37
  • 26 (a)
OneToOne
RRP5 39
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G11964 36
  • 44.8 (n)
  • 32.6 (a)
rice
(Oryza sativa)
Liliopsida Os07g0203300 36
  • 48.57 (n)
  • 39.11 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 41 (a)
OneToOne
Species with no ortholog for PDCD11:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PDCD11 Gene

ENSEMBL:
Gene Tree for PDCD11 (if available)
TreeFam:
Gene Tree for PDCD11 (if available)

Paralogs for PDCD11 Gene

No data available for Paralogs for PDCD11 Gene

Variants for PDCD11 Gene

Sequence variations from dbSNP and Humsavar for PDCD11 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type MAF
rs7831 - 103,445,545(+) AGAGG(A/C)CTAGT reference, missense
rs942900 -- 103,444,697(-) TGGCC(A/G)GCTGC intron-variant
rs1139292 -- 103,446,116(+) GGAAA(A/G)CCCCG utr-variant-3-prime
rs1139293 -- 103,446,119(+) AAACC(A/C)CGGGG utr-variant-3-prime
rs1139294 -- 103,446,169(+) TGGCC(A/C)CATTA utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for PDCD11 Gene

Variant ID Type Subtype PubMed ID
nsv7529 CNV Insertion 18451855
nsv518987 CNV Loss 19592680
nsv524966 CNV Loss 19592680

Relevant External Links for PDCD11 Gene

HapMap Linkage Disequilibrium report
PDCD11
Human Gene Mutation Database (HGMD)
PDCD11

Disorders for PDCD11 Gene

(2) MalaCards Diseases for PDCD11 Gene

Search for PDCD11 Gene in MalaCards »

(1) University of Copenhagen DISEASES for PDCD11 Gene

genes like me logo Genes that share disorders with PDCD11: view

No data available for UniProtKB/Swiss-Prot for PDCD11 Gene

Publications for PDCD11 Gene

  1. Evidence for involvement of NFBP in processing of ribosomal RNA. (PMID: 17654514) Sweet T. … Amini S. (J. Cell. Physiol. 2008) 3 4
  2. Prediction of the coding sequences of unidentified human genes. V. The coding sequences of 40 new genes (KIAA0161-KIAA0200) deduced by analysis of cDNA clones from human cell line KG-1. (PMID: 8724849) Nagase T. … Nomura N. (DNA Res. 1996) 3 4
  3. Regulation of Fas ligand expression and cell death by apoptosis-linked gene 4. (PMID: 10229231) Lacana E. … D'Adamio L. (Nat. Med. 1999) 2 3
  4. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4
  5. Identification of a novel protein from glial cells based on its ability to interact with NF-kappaB subunits. (PMID: 14624448) Sweet T. … Amini S. (J. Cell. Biochem. 2003) 3 4

Products for PDCD11 Gene

Sources for PDCD11 Gene

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