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    NOP2 NOP2 nucleolar protein [ Homo sapiens (human) ]

    Gene ID: 4839, updated on 27-Nov-2024

    Summary

    Official Symbol
    NOP2provided by HGNC
    Official Full Name
    NOP2 nucleolar proteinprovided by HGNC
    Primary source
    HGNC:HGNC:7867
    See related
    Ensembl:ENSG00000111641 MIM:164031; AllianceGenome:HGNC:7867
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NOL1; p120; NSUN1; NOP120
    Summary
    Enables rRNA (cytosine-C5-)-methyltransferase activity. Involved in positive regulation of cell population proliferation; regulation of signal transduction by p53 class mediator; and ribosome biogenesis. Located in nucleolus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in lymph node (RPKM 12.9), bone marrow (RPKM 12.9) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See NOP2 in Genome Data Viewer
    Location:
    12p13.31
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (6556871..6568291, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (6567230..6578651, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (6666037..6677457, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6643463-6644236 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6645785-6646558 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5864 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5865 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5866 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase Neighboring gene intermediate filament family orphan 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6658582-6659082 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6659083-6659583 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6660263-6660762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6661035-6661552 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6663184-6663684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6663685-6664185 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4169 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4170 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4171 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:6677307-6677928 Neighboring gene Sharpr-MPRA regulatory region 3501 Neighboring gene chromodomain helicase DNA binding protein 4 Neighboring gene small Cajal body-specific RNA 11 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6705357-6705858 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6705859-6706358 Neighboring gene uncharacterized LOC124902867 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5868 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4172 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4174 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5869

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC117384, MGC149287, MGC149288

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in nucleolus HDA PubMed 
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    28S rRNA (cytosine(4447)-C(5))-methyltransferase
    Names
    NOL1/NOP2/Sun domain family, member 1
    NOP2 nucleolar protein homolog
    nucleolar protein 1, 120kDa
    nucleolar protein 2 homolog
    probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase
    proliferating-cell nucleolar antigen p120
    proliferation-associated nucleolar protein p120
    putative ribosomal RNA methyltransferase NOP2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001033714.3NP_001028886.1  28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 1

      See identical proteins and their annotated locations for NP_001028886.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      BC065257, DC316656
      Consensus CDS
      CCDS44811.1
      UniProtKB/Swiss-Prot
      P46087
      Related
      ENSP00000382392.2, ENST00000399466.6
      Conserved Domains (3) summary
      COG0144
      Location:253582
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      pfam01189
      Location:373581
      Nol1_Nop2_Fmu; 16S rRNA methyltransferase RsmF
      pfam17125
      Location:295369
      Methyltr_RsmF_N; N-terminal domain of 16S rRNA methyltransferase RsmF
    2. NM_001258308.2NP_001245237.1  28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 2

      See identical proteins and their annotated locations for NP_001245237.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is longer than isoform 1.
      Source sequence(s)
      BC128183, CX868076
      Consensus CDS
      CCDS58203.1
      UniProtKB/Swiss-Prot
      A1A4Z3, B3KPD6, P46087, Q05BA7, Q0P5S5, Q3KQS4, Q58F30
      Related
      ENSP00000313272.6, ENST00000322166.10
      Conserved Domains (3) summary
      COG0144
      Location:257586
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      pfam01189
      Location:377585
      Nol1_Nop2_Fmu; 16S rRNA methyltransferase RsmF
      pfam17125
      Location:299373
      Methyltr_RsmF_N; N-terminal domain of 16S rRNA methyltransferase RsmF
    3. NM_001258309.2NP_001245238.1  28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 3

      See identical proteins and their annotated locations for NP_001245238.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains an alternate exon and uses an alternate splice site in the coding region, but maintians the reading frame, compared to variant 1. The encoded isoform (3) is longer than isoform 1.
      Source sequence(s)
      BC106072, DC316656
      Consensus CDS
      CCDS58204.1
      UniProtKB/Swiss-Prot
      P46087
      Related
      ENSP00000371858.3, ENST00000382421.7
      Conserved Domains (1) summary
      COG0144
      Location:290619
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
    4. NM_001258310.2NP_001245239.1  28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 4

      See identical proteins and their annotated locations for NP_001245239.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains an alternate internal exon in the 3' region, which results in a frameshift, compared to variant 1. The encoded isoform (4) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BC082985, DC316656
      Consensus CDS
      CCDS58202.1
      UniProtKB/Swiss-Prot
      P46087
      Related
      ENSP00000439422.1, ENST00000545200.5
      Conserved Domains (3) summary
      TIGR00446
      Location:308582
      nop2p; NOL1/NOP2/sun family putative RNA methylase
      pfam01189
      Location:373581
      Nol1_Nop2_Fmu; 16S rRNA methyltransferase RsmF
      pfam17125
      Location:295369
      Methyltr_RsmF_N; N-terminal domain of 16S rRNA methyltransferase RsmF
    5. NM_006170.4NP_006161.2  28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 1

      See identical proteins and their annotated locations for NP_006161.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1. Variants 1 and 2 encode the same isoform.
      Source sequence(s)
      AK056208
      Consensus CDS
      CCDS44811.1
      UniProtKB/Swiss-Prot
      P46087
      Related
      ENSP00000443150.1, ENST00000541778.5
      Conserved Domains (3) summary
      COG0144
      Location:253582
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      pfam01189
      Location:373581
      Nol1_Nop2_Fmu; 16S rRNA methyltransferase RsmF
      pfam17125
      Location:295369
      Methyltr_RsmF_N; N-terminal domain of 16S rRNA methyltransferase RsmF

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      6556871..6568291 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      6567230..6578651 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)