NHP6A high-mobility group nucleosome-binding protein [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: NHP6A
Official Full Name: high-mobility group nucleosome-binding protein
Primary source: SGD:S000006256
Locus tag: YPR052C
See related: AllianceGenome:SGD:S000006256; FungiDB:YPR052C; VEuPathDB:YPR052C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables DNA binding activity, bending; MutSalpha complex binding activity; and nucleosome binding activity. Involved in DNA-templated transcription and chromatin remodeling. Located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See NHP6A in Genome Data Viewer

Location:: chromosome: XVI

Exon count:: 1

Sequence:: Chromosome: XVI; NC_001148.4 (665693..665974, complement)

Chromosome XVI - NC_001148.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001148.4

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Testing mechanisms of DNA sliding by architectural DNA-binding proteins: dynamics of single wild-type and mutant protein molecules in vitro and in vivo.
Title: Testing mechanisms of DNA sliding by architectural DNA-binding proteins: dynamics of single wild-type and mutant protein molecules in vitro and in vivo.
The HMGB chromatin protein Nhp6A can bypass obstacles when traveling on DNA.
Title: The HMGB chromatin protein Nhp6A can bypass obstacles when traveling on DNA.
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.
First direct observation of bending/unbending dynamics of DNA in complex with yNhp6A, suggesting a bind-then-bend mechanism for this protein.
Title: Evidence for a bind-then-bend mechanism for architectural DNA binding protein yNhp6A.
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.
studied the genome-wide binding patterns of Nhp6, Hmo1 and the SWI/SNF complex, finding that most of gene promoters presenting high occupancy of this complex also display high enrichment of these HMG proteins.
Title: Role of Nhp6 and Hmo1 in SWI/SNF occupancy and nucleosome landscape at gene regulatory regions.
The yeast HMG box protein NHP6A shows DNA-segment-facilitated dissociation effects similar to those of Fis.
Title: DNA-Segment-Facilitated Dissociation of Fis and NHP6A from DNA Detected via Single-Molecule Mechanical Response.
adapt two high-resolution in vivo protein-mapping techniques to demonstrate direct binding of the heterologous Nhp6A protein at a LacI repression loop in living E. coli cells
Title: High-resolution mapping of architectural DNA binding protein facilitation of a DNA repression loop in Escherichia coli.
This effect is specific, and the Sir2 deacetylase activity is required for the Sir2 mediated repression of NHP6A. Moreover, the presence of the SIR complex seems required for Sir2 to silence NHP6A.
Title: Sir2 is involved in the transcriptional modulation of NHP6A in Saccharomyces cerevisiae.
Observations support a model in which the HMGB protein Nhp6A soften DNA through random dynamic binding and dissociation, accompanied by DNA kinking and straightening, respectively.
Title: Single-molecule FRET analysis of DNA binding and bending by yeast HMGB protein Nhp6A.

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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 MutSalpha complex binding	IDA Inferred from Direct Assay more info	PubMed
enables nucleosome binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in RNA polymerase II preinitiation complex assembly	IDA Inferred from Direct Assay more info	PubMed
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 organization	IDA Inferred from Direct Assay 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 negative regulation of DNA binding	IDA Inferred from Direct Assay 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_015377.1

High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to chromosomes; functionally redundant with Nhp6Bp; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6A has a paralog, NHP6B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress

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_001148.4 Reference assembly

Range

665693..665974 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001184149.1 → NP_015377.1 TPA: high-mobility group nucleosome-binding protein [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_015377.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W459, P11632

UniProtKB/TrEMBL

G2W997, N1NWB4

Conserved Domains (1) summary

COG5648
Location:1 → 93

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