nub nubbin [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: nubprovided by FlyBase
Official Full Name: nubbinprovided by FlyBase
Primary source: FLYBASE:FBgn0085424
Locus tag: Dmel_CG34395
See related: AllianceGenome:FB:FBgn0085424
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: CG15488; CG15489; CG34395; CG6246; Dmel\CG34395; dOct1; dPOU-19; dPOU-19/pdm-1; dPOU19; nb; Nb; Nub; NUB; Nubbin; Oct-1; Oct1; pdm; Pdm; pdm-1; Pdm-1; PDM-1; pdm1; Pdm1; PDM1; Pdm1/nubbin; POU33F1; twn
Old locus tag: CG15488; CG15489; CG6246; Dmel_CG15488; Dmel_CG15489; Dmel_CG6246
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and transcription cis-regulatory region binding activity. Involved in several processes, including dendrite morphogenesis; regulation of gene expression; and regulation of neural precursor cell proliferation. Located in nucleus. Is expressed in several structures, including gut section; head epidermis primordium; larval neurons; organism subdivision; and somatic precursor cell. Used to study immune system disease. Orthologous to several human genes including POU2F1 (POU class 2 homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 33F1-33F2; 2-47 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2L	NT_033779.5 (12587625..12628135)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2L	NT_033779.4 (12587625..12628135)

Chromosome 2L - NT_033779.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nubbin (Nub)/Pdm1, homologous to mammalian OCT1/POU2F1 and related to OCT4/POU5F1, is expressed in gut epithelium progenitor cells.
Title: The POU/Oct Transcription Factor Nubbin Controls the Balance of Intestinal Stem Cell Maintenance and Differentiation by Isoform-Specific Regulation.
Overexpression of Nub-PB enhanced bacterial clearance of ingested Erwinia carotovora carotovora 15
Title: Nubbin isoform antagonism governs Drosophila intestinal immune homeostasis.
this study shows that Pdm1 is necessary for a beneficial gut microbiota and normal lifespan
Title: The POU/Oct Transcription Factor Pdm1/nub Is Necessary for a Beneficial Gut Microbiota and Normal Lifespan of Drosophila.
We suggest that Nub protein plays an ancient role, shared with mammalian Oct/POU transcription factors, to moderate responses to immune challenge, thereby increasing the tolerance to biotic stress.
Title: The Oct1 homolog Nubbin is a repressor of NF-κB-dependent immune gene expression that increases the tolerance to gut microbiota.
Pdm-1 and Drosophila octamer elements dictate the coordinated transcription of core histone genes
Title: Drosophila octamer elements and Pdm-1 dictate the coordinated transcription of core histone genes.
These results provide a new neuroblast lineage for investigating temporal identity and reveal the importance of Pdm and Cas as timing factors that close temporal identity windows.
Title: Pdm and Castor close successive temporal identity windows in the NB3-1 lineage.
Nub and Tsh domains share some of the attributes of classical compartments, but lack their stringent and immobile boundaries.
Title: Nubbin and Teashirt mark barriers to clonal growth along the proximal-distal axis of the Drosophila wing.
maintaining high levels of Mitimere or Nubbin, two POU proteins, in a ganglion mother cell causes it to undergo self-renewing asymmetric divisions
Title: Upregulation of Mitimere and Nubbin acts through cyclin E to confer self-renewing asymmetric division potential to neural precursor cells.
Pdm and Cas specify late-born neuronal identity; that Pdm and Cas act combinatorially to specify a temporal identity distinct from either protein alone, and that Cas repression of pdm expression regulates the generation of neuronal diversity.
Title: Pdm and Castor specify late-born motor neuron identity in the NB7-1 lineage.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in appendage morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of antibacterial peptide biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of neural precursor cell proliferation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nubbin

Names: CG34395-PB; CG34395-PD; CG34395-PE; NUBBIN; POU domain 1; POU domain protein 1; Pdm1; nub-PB; nub-PD; nub-PE; twain

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NT_033779.5 Reference assembly

Range

12587625..12628135

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001103683.2 → NP_001097153.1 nubbin, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001097153.1

Status: REVIEWED

UniProtKB/TrEMBL

A8DYZ8

Conserved Domains (3) summary

smart00352
Location:791 → 855

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:886 → 939

Homeobox; Homeobox domain

pfam14739
Location:315 → 399

DUF4472; Domain of unknown function (DUF4472)
NM_057311.5 → NP_476659.1 nubbin, isoform D [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_476659.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P31368, Q9VK74

UniProtKB/TrEMBL

X2JDY7

Related

FBpp0111555

Conserved Domains (2) summary

smart00352
Location:431 → 495

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:526 → 579

Homeobox; Homeobox domain
NM_001298947.1 → NP_001285876.1 nubbin, isoform E [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001285876.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P31368, Q9VK74

UniProtKB/TrEMBL

X2JDY7

Conserved Domains (2) summary

smart00352
Location:431 → 495

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:526 → 579

Homeobox; Homeobox domain