PomBase home

protein coding gene - prp16 (SPBC1711.17) - ATP-dependent RNA helicase, splicosomal Prp16

Gene summary

Standard name
prp16
Systematic ID
SPBC1711.17
Product
ATP-dependent RNA helicase, splicosomal Prp16
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
SPBC17G9.01, prp14
UniProt ID
Q9P774
ORFeome ID
48/48D04
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 2166225..2169933 forward strand

Annotation

Disease association

MONDO:0019200 - retinitis pigmentosa

References:

MONDO:0032604 - retinitis pigmentosa 84

References:

GO biological process

GO:0000350 - generation of catalytic spliceosome for second transesterification step

References:

GO:0045292 - mRNA cis splicing, via spliceosome

References:

GO cellular component

GO:0000785 - chromatin

References:

GO:0005634 - nucleus

References:

GO:0005681 - spliceosomal complex

References:

GO:0005684 - U2-type spliceosomal complex

References:

GO molecular function

GO:0034458 - 3'-5' RNA helicase activity

References:

GO:0005524 - ATP binding

References:

GO:0016887 - ATP hydrolysis activity

References:

GO:0000384 - first spliceosomal transesterification activity

References:

GO:0003723 - RNA binding

References:

Multi-locus phenotype

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

FYPO:0003029 - decreased mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0003619 - normal mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0001357 - normal vegetative cell population growth

References:

Genotypes:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0003098 - abnormal heterochromatin assembly at centromere outer repeat during vegetative growth

References:

Genotypes:

FYPO:0000059 - abnormal mitotic cell cycle

References:

Genotypes:

FYPO:0001512 - branched, elongated cell

References:

Genotypes:

FYPO:0002835 - centromeric outer repeat transcript-derived siRNA absent

References:

Genotypes:

FYPO:0000229 - cut

References:

Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

FYPO:0000080 - decreased cell population growth at low temperature

References:

Genotypes:

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0000888 - decreased histone H3-K9 dimethylation at centromere outer repeat during vegetative growth

References:

Genotypes:

FYPO:0003029 - decreased mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0003041 - decreased snRNA splicing

References:

Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

References:

Genotypes:

FYPO:0001122 - elongated vegetative cell

References:

Genotypes:

FYPO:0001919 - fragmented nucleus during vegetative growth

References:

Genotypes:

FYPO:0000741 - increased cellular pigment accumulation

References:

Genotypes:

FYPO:0000220 - increased centromeric outer repeat transcript level

References:

Genotypes:

FYPO:0002411 - inviable curved elongated vegetative cell

References:

Genotypes:

FYPO:0001917 - inviable elongated mononucleate monoseptate vegetative cell

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0000228 - lagging mitotic chromosomes

References:

Genotypes:

FYPO:0006943 - normal 3'-5' RNA helicase activity

References:

Genotypes:

FYPO:0004300 - normal ATPase activity

References:

Genotypes:

FYPO:0000674 - normal cell population growth at high temperature

References:

Genotypes:

FYPO:0002141 - normal cell population growth at low temperature

References:

Genotypes:

FYPO:0004742 - normal chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0003619 - normal mRNA splicing, via spliceosome

References:

Genotypes:

FYPO:0001357 - normal vegetative cell population growth

References:

Genotypes:

FYPO:0000091 - sensitive to thiabendazole

References:

Genotypes:

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

IDNameInterPro nameDB name
PF00270DEADDEAD/DEAH_box_helicase_domPfam
PF00271Helicase_CHelicase_C-likePfam
PF04408WHD_HA2HA2_WHPfam
PF07717OB_NTP_bindDEAD-box_helicase_OB_foldPfam
PF21010HA2_CPfam
cd18791SF2_C_RHACDD
PS00690DEAH_ATP_HELICASEDNA/RNA_helicase_DEAH_CSPROSITE patterns
PS51192HELICASE_ATP_BIND_1Helicase_ATP-bdPROSITE profiles
PS51194HELICASE_CTERHelicase_C-likePROSITE profiles
SM00487DEXDcHelicase_ATP-bdSMART
SM00490HELICcHelicase_C-likeSMART
SM00847HA2Helicase-assoc_domSMART
G3DSA:1.20.120.1080:FF:000018CATH-FunFam
G3DSA:3.40.50.300:FF:000007CATH-FunFam
G3DSA:3.40.50.300:FF:000615CATH-FunFam
G3DSA:1.20.120.1080CATH-Gene3D
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF52540P-loop_NTPaseSUPERFAMILY
PTHR18934PANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Low-complexitydisorder_predictionMobiDB-Low-complexity
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMobiDB-Positive-Polyelectrolyte

Orthologs

References / Literature

PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
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:24013502 - Epe1 recruits BET family bromodomain protein Bdf2 to establish heterochromatin boundaries.
Wang J et al. Genes Dev 2013 Sep 01;27(17):1886-902
PMID:30810475 - Early splicing functions of fission yeast Prp16 and its unexpected requirement for gene Silencing is governed by intronic features.
Vijayakumari D et al. RNA Biol 2019 Jun;16(6):754-769
PMID:28446597 - The histone variant H2A.Z promotes splicing of weak introns.
Nissen KE et al. Genes Dev 2017 Apr 01;31(7):688-701
PMID:21386897 - Systematic two-hybrid and comparative proteomic analyses reveal novel yeast pre-mRNA splicing factors connected to Prp19.
Ren L et al. PLoS One 2011 Feb 28;6(2):e16719
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:26682798 - The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast.
Aronica L et al. Nucleic Acids Res 2016 Feb 29;44(4):1703-17
PMID:20018856 - Involvement of the spliceosomal U4 small nuclear RNA in heterochromatic gene silencing at fission yeast centromeres.
Chinen M et al. J Biol Chem 2010 Feb 19;285(8):5630-8
PMID:28231281 - The intron in centromeric noncoding RNA facilitates RNAi-mediated formation of heterochromatin.
Mutazono M et al. PLoS Genet 2017 Feb;13(2):e1006606
PMID:37615341 - Schizosaccharomyces pombe Rtf2 is important for replication fork barrier activity of RTS1 via splicing of Rtf1 .
Budden AM et al. Elife 2023 Aug 24;12
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:0000002 - Comments
PMID:28947618 - Sde2 is an intron-specific pre-mRNA splicing regulator activated by ubiquitin-like processing.
Thakran P et al. EMBO J 2018 Jan 04;37(1):89-101
PMID:9003295 - Isolation of novel pre-mRNA splicing mutants of Schizosaccharomyces pombe.
Urushiyama S et al. Mol Gen Genet 1996 Nov 27;253(1-2):118-27
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
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
PB_REF:0000003 - Disease Association Curation
PMID:24014766 - Structural and functional characterization of the N terminus of Schizosaccharomyces pombe Cwf10.
Livesay SB et al. Eukaryot Cell 2013 Nov;12(11):1472-89
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: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