NHP6B high-mobility group nucleosome-binding protein [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: NHP6B
Official Full Name: high-mobility group nucleosome-binding protein
Primary source: SGD:S000002157
Locus tag: YBR089C-A
See related: AllianceGenome:SGD:S000002157; FungiDB:YBR089C-A; VEuPathDB:YBR089C-A
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: YBR090C-A
Summary: Enables DNA binding activity, bending. Involved in DNA-templated transcription and chromatin remodeling. Located in nucleus. Human ortholog(s) of this gene implicated in syndromic microphthalmia 13. Orthologous to several human genes including HMGB1P1 (high mobility group box 1 pseudogene 1); HMGB2 (high mobility group box 2); and HMGB3 (high mobility group box 3). [provided by Alliance of Genome Resources, Oct 2024]
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Genomic context

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See NHP6B in Genome Data Viewer

Location:: chromosome: II

Exon count:: 1

Sequence:: Chromosome: II; NC_001134.8 (426190..426489, complement)

Chromosome II - NC_001134.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

he absence of chromatin regulators like Nhp6 A and B, interferes with a regulative circular mechanism where histone modification, transcription and metabolism influence each other and contribute to clarify the more general phenomenon in which gene regulation feeds metabolic alterations on epigenetic basis.
Title: Histone acetylation landscape in S. cerevisiae nhp6ab mutants reflects altered glucose metabolism.
Nhp6 proteins, the HMGB1 homologues, control histone gene expression by affecting nucleosome stability at regulative regions of the histone clusters. In addition, we observe that histone gene overexpression in the nhp6ab mutant is accompanied by downregulated translation, which in turn is responsible for the histone decrease phenotype.
Title: A novel role for Nhp6 proteins in histone gene regulation in Saccharomyces cerevisiae.
This review describes the genetic and biochemical experiments that indicate Nhp6 functions in promoting RNA pol III transcription, in formation of preinitiation complexes at promoters, and in facilitating the activity of chromatin modifying complexes.
Title: Nhp6: a small but powerful effector of chromatin structure in Saccharomyces cerevisiae.
The incorporation of the histone variant H2A.Z, but not the HMG proteins Nhp6a/b, in promoter regions creates a specialized chromatin domain that is required for pre-initiation complex assembly at the GAL1 locus.
Title: Variant histone H2A.Z, but not the HMG proteins Nhp6a/b, is essential for the recruitment of Swi/Snf, Mediator, and SAGA to the yeast GAL1 UAS(G).
Nhp6A/B loss leads to increased genomic instability, hypersensitivity to DNA-damaging agents, and shortened yeast cell life span that is associated with elevated levels of extrachromosomal rDNA circles.
Title: Yeast Nhp6A/B and mammalian Hmgb1 facilitate the maintenance of genome stability.
Nhp6 is required for transcriptional initiation fidelity of some but not all tRNA genes, in vivo
Title: Nhp6 is a transcriptional initiation fidelity factor for RNA polymerase III transcription in vitro and in vivo.
Combining either a nhp6ab or a gcn5 mutation with mot1, ccr4, not4, or not5 mutations results in lethality.
Title: Genetic interactions between Nhp6 and Gcn5 with Mot1 and the Ccr4-Not complex that regulate binding of TATA-binding protein in Saccharomyces cerevisiae.
NHP6B is required for transcription of a subset of tRNA genes and heterochromatin barrier function.
Title: Requirement of Nhp6 proteins for transcription of a subset of tRNA genes and heterochromatin barrier function in Saccharomyces cerevisiae.

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Pathways from PubChem

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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

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding, bending	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	HDA more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in RNA polymerase III preinitiation complex assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in RNA polymerase III preinitiation complex assembly	IGI Inferred from Genetic Interaction more info	PubMed
involved_in chromatin remodeling	IGI Inferred from Genetic Interaction more info	PubMed
involved_in maintenance of transcriptional fidelity during transcription elongation by RNA polymerase III	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: high-mobility group nucleosome-binding protein

NP_009647.2

High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to the chromosomes; functionally redundant with Nhp6Ap; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6B has a paralog, NHP6A, that arose from the whole genome duplication

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

NC_001134.8 Reference assembly

Range

426190..426489 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180058.2 → NP_009647.2 TPA: high-mobility group nucleosome-binding protein [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009647.2

Status: REVIEWED

UniProtKB/Swiss-Prot

A2TBM2, D6VQ90, P11633, P89500, P89501

UniProtKB/TrEMBL

A6ZL37, B3LN61, C7GJS0, D3UEI5, G2W997

Conserved Domains (1) summary

COG5648
Location:1 → 99

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]