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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
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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)