protein coding gene - nip7 (SPCC320.11c) - RNA-binding ribosome biogenesis protein Nip7

Gene summary

Standard name: nip7
Systematic ID: SPCC320.11c
Product: RNA-binding ribosome biogenesis protein Nip7
Organism: Schizosaccharomyces pombe (fission yeast)
Synonyms: SPCC330.18
UniProt ID: Q1MTQ9
ORFeome ID: 11/11D07
Characterisation status: biological role published
Feature type: mRNA gene
Genomic location: chromosome III: 144380..145562 forward strand

Annotation

GO biological process

GO:1902626 - assembly of large subunit precursor of preribosome

References:

PMID:36423630

GO cellular component

GO:0005829 - cytosol

References:

PMID:16823372

GO:0005730 - nucleolus

References:

PMID:16823372

GO:0005634 - nucleus

References:

PMID:16823372

GO:0030684 - preribosome

References:

PMID:36423630

GO:0030687 - preribosome, large subunit precursor

References:

GO_REF:0000033

GO molecular function

GO:0003723 - RNA binding

References:

GO_REF:0000051

Modification

MOD:01148 - ubiquitinylated lysine

References:

Protein features

PBO:0111849 - PUA domain

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PomGeneEx:0000012 - RNA level decreased

References:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0002429 - inviable after spore germination, multiple cell divisions, abnormal cell shape, normal cell size

References:

PMID:23697806

Genotypes:

nip7delta

FYPO:0000310 - inviable after spore germination, without cell division, with normal germ tube morphology

References:

PMID:23697806

Genotypes:

nip7delta

FYPO:0002151 - inviable spore

References:

PMID:23697806

Genotypes:

nip7delta

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

nip7delta

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

ID	Name	InterPro name	DB name
PF17833	pre-PUA_NIP7	NIP7_N	PFAM
PF03657	UPF0113	UPF0113_PUA	PFAM
cd21151	PUA_Nip7-like	UPF0113_PUA	CDD
cd21146	Nip7_N_euk	Nip7_N_euk	CDD
PS50890	PUA		PROSITE_PROFILES
SM00359	pua_5	PUA	SMART
G3DSA:2.30.130.10:FF:000002			FUNFAM
G3DSA:3.10.450.220:FF:000001			FUNFAM
SSF88802	Pre-PUA domain		SUPERFAMILY
SSF88697	PUA domain-like	PUA-like_sf	SUPERFAMILY
G3DSA:3.10.450.220			GENE3D
G3DSA:2.30.130.10	PUA domain	PUA_sf	GENE3D
PTHR23415	CYCLIN-DEPENDENT KINASES REGULATORY SUBUNIT/60S RIBOSOME SUBUNIT BIOGENESIS PROTEIN NIP7		PANTHER
PIRSF017190	NIP7	Ribosomal_synth_fac_NIP7	PIRSF

Orthologs

NIP7 (HGNC:24328) Homo sapiens
nip7 (SJAG_01839) Schizosaccharomyces japonicus
NIP7 (YPL211W) Saccharomyces cerevisiae

References / Literature

PMID:12529438 - Global transcriptional responses of fission yeast to environmental stress.: Chen D et al. Mol Biol Cell 2003 Jan;14(1):214-29
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.: Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:36478272 - Translation-complex profiling of fission yeast cells reveals dynamic rearrangements of scanning ribosomal subunits upon nutritional stress.: Duncan CDS et al. Nucleic Acids Res 2022 Dec 09;50(22):13011-13025
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.: Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.: Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.: Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399
PMID:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:31626996 - Multiplexed proteome profiling of carbon source perturbations in two yeast species with SL-SP3-TMT.: Paulo JA et al. J Proteomics 2020 Jan 06;210:103531
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.: Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
GO_REF:0000051 - S. pombe keyword mapping
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.: Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.: Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:26412298 - A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival.: Beckley JR et al. Mol Cell Proteomics 2015 Dec;14(12):3132-41
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.: Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:36423630 - Chromatin localization of nucleophosmin organizes ribosome biogenesis.: Ugolini I et al. Mol Cell 2022 Dec 01;82(23):4443-4457.e9
PMID:25375137 - Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability.: Hasan A et al. PLoS Genet 2014 Nov;10(11):e1004684
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).: Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36