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TOP3B DNA topoisomerase III beta [ Homo sapiens (human) ]

Gene ID: 8940, updated on 18-Aug-2020

Summary

Official Symbol
TOP3Bprovided by HGNC
Official Full Name
DNA topoisomerase III betaprovided by HGNC
Primary source
HGNC:HGNC:11993
See related
Ensembl:ENSG00000100038 MIM:603582
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TOP3B1
Summary
This gene encodes a DNA topoisomerase, an enzyme that controls and alters the topologic states of DNA during transcription. This enzyme catalyzes the transient breaking and rejoining of a single strand of DNA which allows the strands to pass through one another, thus relaxing the supercoils and altering the topology of DNA. The enzyme interacts with DNA helicase SGS1 and plays a role in DNA recombination, cellular aging and maintenance of genome stability. Low expression of this gene may be related to higher survival rates in breast cancer patients. This gene has a pseudogene on chromosome 22. Alternate splicing results in multiple transcript variants. Additional alternatively spliced transcript variants of this gene have been described, but their full-length nature is not known. [provided by RefSeq, Aug 2013]
Expression
Ubiquitous expression in spleen (RPKM 4.6), lymph node (RPKM 3.7) and 25 other tissues See more
Orthologs

Genomic context

See TOP3B in Genome Data Viewer
Location:
22q11.22
Exon count:
21
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (21957025..21982787, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (22311397..22337219, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene RNA, 5S ribosomal pseudogene 493 Neighboring gene mitogen-activated protein kinase 1 Neighboring gene Sharpr-MPRA regulatory region 76 Neighboring gene PPM1F antisense RNA 1 Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent 1F Neighboring gene PRAME N-terminal like, pseudogene Neighboring gene immunoglobulin lambda variable (I)-70 (pseudogene) Neighboring gene immunoglobulin lambda variable 4-69 Neighboring gene immunoglobulin lambda locus

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of topoisomerase (DNA) III beta (TOP3B) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39376, FLJ57454

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA topoisomerase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA topoisomerase type I activity IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA topological change IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromosome segregation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
condensed chromosome IEA
Inferred from Electronic Annotation
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
DNA topoisomerase 3-beta-1
Names
DNA topoisomerase III beta-1
topoisomerase (DNA) III beta
topoisomerase III beta
NP_001269041.1
NP_001269042.1
NP_001336774.1
NP_001336776.1
NP_001336777.1
NP_001336779.1
NP_001336780.1
NP_001336781.1
NP_003926.1

NCBI Reference Sequences (RefSeq)

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_001282112.2NP_001269041.1  DNA topoisomerase 3-beta-1 isoform 1

    See identical proteins and their annotated locations for NP_001269041.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1. Variants 1-5 encode the same protein (isoform 1).
    Source sequence(s)
    AC245452, AF053082, BQ270362, DA025312
    Consensus CDS
    CCDS13797.1
    UniProtKB/Swiss-Prot
    O95985
    UniProtKB/TrEMBL
    A0A024R1C2
    Related
    ENSP00000349705.5, ENST00000357179.9
    Conserved Domains (2) summary
    cd03362
    Location:3167
    TOPRIM_TopoIA_TopoIII; TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving ...
    cd00186
    Location:172593
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
  2. NM_001282113.2NP_001269042.1  DNA topoisomerase 3-beta-1 isoform 1

    See identical proteins and their annotated locations for NP_001269042.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate 5' terminal exon and uses an alternate splice site in the 5' UTR compared to variant 1. Variants 1-5 encode the same protein (isoform 1).
    Source sequence(s)
    AC245452, AK290997, BQ270362
    Consensus CDS
    CCDS13797.1
    UniProtKB/Swiss-Prot
    O95985
    UniProtKB/TrEMBL
    A0A024R1C2, A8K4N2
    Conserved Domains (2) summary
    cd03362
    Location:3167
    TOPRIM_TopoIA_TopoIII; TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving ...
    cd00186
    Location:172593
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
  3. NM_001349845.2NP_001336774.1  DNA topoisomerase 3-beta-1 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1-5 encode the same protein (isoform 1).
    Source sequence(s)
    AC245452, AK290997, BQ270362, DA025312, DA124773
    Consensus CDS
    CCDS13797.1
    Conserved Domains (2) summary
    cd03362
    Location:3167
    TOPRIM_TopoIA_TopoIII; TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving ...
    cd00186
    Location:172593
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
  4. NM_001349847.2NP_001336776.1  DNA topoisomerase 3-beta-1 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1-5 encode the same protein (isoform 1).
    Source sequence(s)
    AC245452, AK290997, BQ270362, DA025312, DB134726
    Consensus CDS
    CCDS13797.1
    Conserved Domains (2) summary
    cd03362
    Location:3167
    TOPRIM_TopoIA_TopoIII; TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving ...
    cd00186
    Location:172593
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
  5. NM_001349848.2NP_001336777.1  DNA topoisomerase 3-beta-1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in its 5' terminal exon and contains an alternate exon in its 5' UTR, resulting in the use of a downstream start codon compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1. Variants 6 and 7 encode the same protein (isoform 2).
    Source sequence(s)
    AC245452, AK290997, BQ270362, DA025312, DB165571, DR003213
    Conserved Domains (2) summary
    cd00186
    Location:36457
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
    cl00718
    Location:631
    TOPRIM; Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from ...
  6. NM_001349850.2NP_001336779.1  DNA topoisomerase 3-beta-1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) contains an alternate exon structure in the 5' region and contains an alternate exon in its 5' UTR, resulting in the use of a downstream start codon compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1. Variants 6 and 7 encode the same protein (isoform 2).
    Source sequence(s)
    AC245452, AK290997, BQ270362, DA025312, DA124773, DB146985, DB150453
    Conserved Domains (2) summary
    cd00186
    Location:36457
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
    cl00718
    Location:631
    TOPRIM; Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from ...
  7. NM_001349851.2NP_001336780.1  DNA topoisomerase 3-beta-1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in its 5' UTR, resulting in the use of a downstream start codon, and its 3' terminal exon extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (3) has a shorter N-terminus and a shorter and distinct C-terminus comparted to isoform 1. Variants 8 and 9 encode the same protein (isoform 3).
    Source sequence(s)
    AI361851, AK290997, BQ270362, CF137541, CN302239, CN353231, CN353232, CR980357, CT002728, DA025312, DR003213
    Related
    ENSP00000408282.1, ENST00000457270.5
    Conserved Domains (2) summary
    cd00186
    Location:36457
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
    cl00718
    Location:631
    TOPRIM; Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from ...
  8. NM_001349852.2NP_001336781.1  DNA topoisomerase 3-beta-1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) differs in its 5' UTR, resulting in the use of a downstream start codon, and its 3' terminal exon extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (3) has a shorter N-terminus and a shorter and distinct C-terminus comparted to isoform 1. Variants 8 and 9 encode the same protein (isoform 3).
    Source sequence(s)
    AI361851, AK290997, BQ270362, CF137541, CN302239, CN353231, CN353232, CR980357, CT002728, DA025312, DA124773, DB146985, DB150453, DR003213
    Conserved Domains (2) summary
    cd00186
    Location:36457
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
    cl00718
    Location:631
    TOPRIM; Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from ...
  9. NM_003935.5NP_003926.1  DNA topoisomerase 3-beta-1 isoform 1

    See identical proteins and their annotated locations for NP_003926.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1-5 encode the same protein (isoform 1).
    Source sequence(s)
    BC002432, BQ270362, CR456596, DA025312
    Consensus CDS
    CCDS13797.1
    UniProtKB/Swiss-Prot
    O95985
    UniProtKB/TrEMBL
    A0A024R1C2
    Related
    ENSP00000381773.2, ENST00000398793.6
    Conserved Domains (2) summary
    cd03362
    Location:3167
    TOPRIM_TopoIA_TopoIII; TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving ...
    cd00186
    Location:172593
    TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...

RNA

  1. NR_146277.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) contains multiple differences, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC245452, AI361851, AK290997, BI908256, BQ270362, CF137541, CN353231, CN353232, CR980357, CT002728, DA796433, DB137508
    Related
    ENST00000444502.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    21957025..21982787 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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