protein coding gene - dia4 (SPAC25B8.06c) - mitochondrial serine-tRNA ligase

Gene summary

Standard name: dia4
Systematic ID: SPAC25B8.06c
Product: mitochondrial serine-tRNA ligase
Organism: Schizosaccharomyces pombe (fission yeast)
UniProt ID: Q9UTB2
ORFeome ID: 44/44F01
Characterisation status: biological role inferred
Feature type: mRNA gene
Genomic location: chromosome I: 4162367..4165905 reverse strand

Annotation

Disease association

MONDO:0013458 - hyperuricemia-pulmonary hypertension-renal failure-alkalosis syndrome

References:

PB_REF:0000006

GO biological process

GO:0070158 - mitochondrial seryl-tRNA aminoacylation

References:

GO_REF:0000033

GO cellular component

GO:0005759 - mitochondrial matrix

References:

PMID:16823372

GO:0005739 - mitochondrion

References:

PMID:16823372

GO molecular function

GO:0005524 - ATP binding

References:

GO_REF:0000002

GO:0004828 - serine-tRNA ligase activity

References:

GO_REF:0000033

GO:0000049 - tRNA binding

References:

GO_REF:0000033

Protein sequence feature

SO:0001808 - mitochondrial_targeting_signal

References:

PMID:36408920

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

References:

PMID:33313903

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0009078 - decreased cell population growth on ethanol carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009053 - decreased cell population growth on glutamate nitrogen source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000684 - decreased cell population growth on glycerol carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009091 - decreased cell population growth on lysine and proline nitrogen source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0002924 - decreased cell population growth on maltose carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009099 - decreased cell population growth on mannitol carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0007562 - decreased cell population growth on serine nitrogen source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0001176 - decreased cell population growth on sucrose carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009097 - decreased cell population growth on xylose carbon source

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0002111 - inviable tapered vegetative cell

References:

PMID:23697806

Genotypes:

dia4delta

FYPO:0002061 - inviable vegetative cell population

References:

PMID:23697806

Genotypes:

dia4delta

FYPO:0009085 - resistance to lithium chloride and sodium dodecyl sulfate

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000077 - resistance to rapamycin

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0001097 - sensitive to amitrole

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0001501 - sensitive to brefeldin A

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000097 - sensitive to caffeine during vegetative growth

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000799 - sensitive to diamide

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0007931 - sensitive to egtazic acid

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000842 - sensitive to ethanol during vegetative growth

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0007928 - sensitive to ethylenediaminetetraacetic acid

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000785 - sensitive to formamide

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000088 - sensitive to hydroxyurea

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009071 - sensitive to itraconazole

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009086 - sensitive to lithium chloride and sodium dodecyl sulfate

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0006836 - sensitive to magnesium chloride

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009088 - sensitive to magnesium chloride and sodium dodecyl sulfate

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0007924 - sensitive to potassium chloride and sodium dodecyl sulfate

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0002328 - sensitive to terbinafine

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0001457 - sensitive to tunicamycin

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0000115 - sensitive to valproic acid

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0003656 - sensitive to vanadate

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0009064 - sensitive to X-rays and rapamycin during vegetative growth.

References:

PMID:37787768

Genotypes:

dia4delta

FYPO:0002060 - viable vegetative cell population

References:

PMID:20473289

Genotypes:

dia4delta

Taxonomic conservation

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

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

Warnings

PBO:0000070 - gene structure updated

References:

PMID:21511999

Protein features

ID	Name	InterPro name	DB name
PF02403	Seryl_tRNA_N	Ser-tRNA-synth_1_N	PFAM
PF00587	tRNA-synt_2b	aa-tRNA-synt_IIb	PFAM
cd00770	SerRS_core	SerRS_core	CDD
PS50862	AA_TRNA_LIGASE_II	aa-tRNA-synth_II	PROSITE_PROFILES
PR00981	TRNASYNTHSER	Ser-tRNA-ligase_type_1	PRINTS
G3DSA:3.30.930.10:FF:000305			FUNFAM
SSF55681	Class II aaRS and biotin synthetases	aa-tRNA-synth_II/BPL/LPL	SUPERFAMILY
SSF46589	tRNA-binding arm	tRNA-bd_arm	SUPERFAMILY
G3DSA:3.30.930.10	Bira Bifunctional Protein; Domain 2	aa-tRNA-synth_II/BPL/LPL	GENE3D
G3DSA:1.10.287.40		SerRS_1_N_sf	GENE3D
PTHR11778	SERYL-TRNA SYNTHETASE	Ser-tRNA-ligase_type_1	PANTHER
PIRSF001529	Ser-tRNA_ligase	Ser-tRNA-ligase_type_1	PIRSF
TIGR00414	serS	Ser-tRNA-ligase_type_1	NCBIFAM

Orthologs

SARS2 (HGNC:17697) Homo sapiens
dia4 (SJAG_02977) Schizosaccharomyces japonicus
DIA4 (YHR011W) Saccharomyces cerevisiae

References / Literature

PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
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
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
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
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: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
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:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.: Rodríguez-López M et al. Elife 2023 Oct 03;12
GO_REF:0000002 - Comments
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:36408920 - UniProt: the Universal Protein Knowledgebase in 2023.: UniProt Consortium Nucleic Acids Res 2023 Jan 06;51(D1):D523-D531