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protein coding gene - rhp16 (SPCC330.01c) - DNA translocase/ubiquitin protein ligase E3 Rhp16/Rad16

Gene summary

Standard name
rhp16
Systematic ID
SPCC330.01c
Product
DNA translocase/ubiquitin protein ligase E3 Rhp16/Rad16
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
SPCC613.13c, rad16
UniProt ID
P79051
ORFeome ID
47/47D05
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 102424..106710 reverse strand

Annotation

Complementation

PBO:0012599 - functionally complements S. cerevisiae RAD16

References:

GO biological process

GO:0006338 - chromatin remodeling

References:

GO:0006289 - nucleotide-excision repair

References:

GO:0000720 - pyrimidine dimer repair by nucleotide-excision repair

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GO cellular component

GO:0000113 - nucleotide-excision repair factor 4 complex

References:

GO:0005634 - nucleus

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GO molecular function

GO:0005524 - ATP binding

References:

GO:0016887 - ATP hydrolysis activity

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GO:0140658 - ATP-dependent chromatin remodeler activity

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GO:0003677 - DNA binding

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GO:0046872 - metal ion binding

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GO:0061630 - ubiquitin protein ligase activity

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Genome organisation

PBO:0091283 - divergently oriented to functionally related gene

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Modification

MOD:01149 - sumoylated lysine

References:

Protein features

PBO:0111747 - DEAD/DEAH box helicase

PBO:0111748 - helicase C-terminal domain

PBO:0111749 - ubiquitin-protein ligase E3

PBO:0111746 - zf-C3HC4 type (RING finger)

PBO:0111743 - zinc finger protein

Qualitative gene expression

PomGeneEx:0000027 - ribosomal density decreased

References:

PomGeneEx:0000026 - ribosomal density increased

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PomGeneEx:0000011 - RNA level increased

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PomGeneEx:0000014 - RNA present

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Quantitative gene expression

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000969 - normal growth during cellular response to UV

References:

Genotypes:

FYPO:0001357 - normal vegetative cell population growth

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Genotypes:

FYPO:0000102 - sensitive to cisplatin

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

Genotypes:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

Protein features

IDNameInterPro nameDB name
PF00097zf-C3HC4Znf_C3HC4_RING-typePfam
PF00176SNF2-rel_domSNF2_NPfam
PF00271Helicase_CHelicase_C-likePfam
cd16567RING-HC_RAD16-likeCDD
cd18008DEXDc_SHPRH-likeCDD
cd18793SF2_C_SNFSNF2/RAD54-like_CCDD
PS00518ZF_RING_1Znf_RING_CSPROSITE patterns
PS50089ZF_RING_2Znf_RINGPROSITE profiles
PS51192HELICASE_ATP_BIND_1Helicase_ATP-bdPROSITE profiles
PS51194HELICASE_CTERHelicase_C-likePROSITE profiles
SM00184RINGZnf_RINGSMART
SM00487DEXDcHelicase_ATP-bdSMART
SM00490HELICcHelicase_C-likeSMART
G3DSA:3.30.40.10:FF:000753CATH-FunFam
G3DSA:3.40.50.300:FF:001864CATH-FunFam
G3DSA:3.30.40.10Znf_RING/FYVE/PHDCATH-Gene3D
G3DSA:3.40.50.10810SNF2-like_sfCATH-Gene3D
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF52540P-loop_NTPaseSUPERFAMILY
SSF57850SUPERFAMILY
PTHR45626PANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Low-complexitydisorder_predictionMobiDB-Low-complexity
mobidb-lite-Negative-Polyelectrolytedisorder_predictionMobiDB-Negative-Polyelectrolyte
mobidb-lite-Polardisorder_predictionMobiDB-Polar
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMobiDB-Positive-Polyelectrolyte

Orthologs

References / Literature

PMID:26537787 - Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast.
Køhler JB et al. Nat Commun 2015 Nov 05;6:8827
GO_REF:0000108 - Automatic assignment of GO terms using logical inference, based on on inter-ontology links.
PMID:18722173 - Chromosome fusions following telomere loss are mediated by single-strand annealing.
Wang X et al. Mol Cell 2008 Aug 22;31(4):463-473
GO_REF:0000050 - Manual transfer of GO annotation data to genes by curator judgment of sequence model
GO_REF:0000002 - Comments
GO_REF:0000051 - S. pombe keyword mapping
PMID:29432178 - General amino acid control in fission yeast is regulated by a nonconserved transcription factor, with functions analogous to Gcn4/Atf4.
Duncan CDS et al. Proc Natl Acad Sci U S A 2018 Feb 20;115(8):E1829-E1838
PMID:11057444 - The genetic control of spontaneous and UV-induced mitotic intrachromosomal recombination in the fission yeast Schizosaccharomyces pombe.
Osman F et al. Curr Genet 2000 Oct;38(3):113-25
PMID:10446227 - Characterization of the rhp7(+) and rhp16(+) genes in Schizosaccharomyces pombe.
Lombaerts M et al. Nucleic Acids Res 1999 Sep 01;27(17):3410-6
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:30824696 - Systematic analysis reveals the prevalence and principles of bypassable gene essentiality.
Li J et al. Nat Commun 2019 Mar 01;10(1):1002
PMID:27984744 - Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs.
Joh RI et al. Mol Cell 2016 Dec 15;64(6):1088-1101
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:12675805 - A new Schizosaccharomyces pombe base excision repair mutant, nth1, reveals overlapping pathways for repair of DNA base damage.
Osman F et al. Mol Microbiol 2003 Apr;48(2):465-80
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:12161753 - The transcriptional program of meiosis and sporulation in fission yeast.
Mata J et al. Nat Genet 2002 Sep;32(1):143-7
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:26896847 - Ensembl comparative genomics resources.
Herrero J et al. Database (Oxford) 2016;2016
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:8879272 - Cloning of Schizosaccharomyces pombe rph16+, a gene homologous to the Saccharomyces cerevisiae RAD16 gene.
Bang DD et al. Mutat Res 1996 Oct 18;364(2):57-71
GO_REF:0000111 - Gene Ontology annotations Inferred by Curator (IC) using at least one Inferred by Sequence Similarity (ISS) annotation to support the inference