top2b DNA topoisomerase II beta [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: top2bprovided by ZNC
Official Full Name: DNA topoisomerase II betaprovided by ZNC
Primary source: ZFIN:ZDB-GENE-041008-136
See related: Ensembl:ENSDARG00000034195 AllianceGenome:ZFIN:ZDB-GENE-041008-136
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: im:7138121; wu:fc38e02; si:dkey-98n4.1
Summary: Predicted to enable DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity. Acts upstream of or within axonogenesis and sensory system development. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex. Predicted to be active in nucleus. Is expressed in brain; eye; immature eye; and pharyngeal arch 3-7. Orthologous to human TOP2B (DNA topoisomerase II beta). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 19

Exon count:: 35

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (17688350..17774903, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (18229785..18316339, complement)

Chromosome 19 - NC_007130.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The absence of zygotic top2a is not fully compensated for by maternal, zygotic or ectopic top2b mRNA suggesting distinct functions of Top2a and Top2b in embryonic development.
Title: Maternal topoisomerase II alpha, not topoisomerase II beta, enables embryonic development of zebrafish top2a-/- mutants.
importance of epigenetic regulator Top2b in the intricate series of events that lead to a properly wired visual system.
Title: Topoisomerase IIbeta is required for lamina-specific targeting of retinal ganglion cell axons and dendrites.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP-dependent activity, acting on DNA	ISS Inferred from Sequence or Structural Similarity more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA topoisomerase activity	IEA Inferred from Electronic Annotation more info
enables DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity	IEA Inferred from Electronic Annotation more info
enables DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity	ISS Inferred from Sequence or Structural Similarity more info
enables isomerase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA topological change	IEA Inferred from Electronic Annotation more info
involved_in DNA topological change	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA topological change	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within axon target recognition	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chromosome condensation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromosome segregation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neuromast development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in resolution of meiotic recombination intermediates	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retina layer formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sister chromatid segregation	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: DNA topoisomerase 2-beta

Names: topoisomerase (DNA) II beta

NP_001038656.1

EC 5.6.2.3

XP_005159564.1

EC 5.6.2.3

XP_068071274.1

EC 5.6.2.3

NCBI Reference Sequences (RefSeq)

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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)

NM_001045191.2 → NP_001038656.1 DNA topoisomerase 2-beta

Status: PROVISIONAL

Source sequence(s)

BX927238, CR391921

UniProtKB/TrEMBL

A0A8N7UYB5, E7F9S9, Q1LUT2

Related

ENSDARP00000108088.2, ENSDART00000130695.4

Conserved Domains (7) summary

cd03365
Location:475 → 595

TOPRIM_TopoIIA; TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of ...

cd00187
Location:731 → 1191

TOP4c; DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA ...

cd03481
Location:285 → 437

TopoIIA_Trans_ScTopoIIA; TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded ...

PTZ00108
Location:45 → 1376

PTZ00108; DNA topoisomerase 2-like protein; Provisional

pfam02518
Location:100 → 194

HATPase_c; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

pfam08070
Location:1510 → 1604

DTHCT; DTHCT (NUC029) region

pfam16898
Location:593 → 731

TOPRIM_C; C-terminal associated domain of TOPRIM

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007130.7 Reference GRCz11 Primary Assembly

Range

17688350..17774903 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005159507.5 → XP_005159564.1 DNA topoisomerase 2-beta isoform X1

UniProtKB/TrEMBL

A0A8M2B6J3

Conserved Domains (7) summary

cd03365
Location:470 → 590

TOPRIM_TopoIIA; TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of ...

cd00187
Location:726 → 1186

TOP4c; DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA ...

cd03481
Location:280 → 432

TopoIIA_Trans_ScTopoIIA; TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded ...

PTZ00108
Location:40 → 1371

PTZ00108; DNA topoisomerase 2-like protein; Provisional

pfam02518
Location:95 → 189

HATPase_c; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

pfam08070
Location:1505 → 1599

DTHCT; DTHCT (NUC029) region

pfam16898
Location:588 → 726

TOPRIM_C; C-terminal associated domain of TOPRIM
XM_068215173.1 → XP_068071274.1 DNA topoisomerase 2-beta isoform X2