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Protein

Putative ATP-dependent RNA helicase C550.03c

Gene

SPCC550.03c

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

RNA helicase component of the SKI complex involved in 3'-mRNA degradation pathway.By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi302 – 309ATPPROSITE-ProRule annotation8

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: GO_Central
  • RNA binding Source: UniProtKB-KW
  • RNA helicase activity Source: PomBase

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-SPO-429958 mRNA decay by 3' to 5' exoribonuclease

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Putative ATP-dependent RNA helicase C550.03c (EC:3.6.4.-)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
ORF Names:SPCC550.03c
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri284812 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002485 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome III

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:SPCC550.03c

Schizosaccharomyces pombe database

More...
PomBasei
SPCC550.03c

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003107851 – 1213Putative ATP-dependent RNA helicase C550.03cAdd BLAST1213

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
O59801

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
O59801

PRoteomics IDEntifications database

More...
PRIDEi
O59801

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
O59801

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the SKI complex.By similarity

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
275422, 62 interactors

STRING: functional protein association networks

More...
STRINGi
4896.SPCC550.03c.1

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
O59801

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
O59801

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini289 – 445Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST157
Domaini545 – 736Helicase C-terminalPROSITE-ProRule annotationAdd BLAST192

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi393 – 396DEAH box4

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the helicase family. SKI2 subfamily.Curated

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000163048

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O59801

KEGG Orthology (KO)

More...
KOi
K12599

Identification of Orthologs from Complete Genome Data

More...
OMAi
VIIMLPD

Database of Orthologous Groups

More...
OrthoDBi
EOG092C0MRM

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O59801

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00079 HELICc, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011545 DEAD/DEAH_box_helicase_dom
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR025696 rRNA_proc-arch_dom
IPR016438 Ski2-like
IPR012961 Ski2_C

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00270 DEAD, 1 hit
PF08148 DSHCT, 1 hit
PF00271 Helicase_C, 1 hit
PF13234 rRNA_proc-arch, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF005198 Antiviral_helicase_SKI2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00487 DEXDc, 1 hit
SM01142 DSHCT, 1 hit
SM00490 HELICc, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52540 SSF52540, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

O59801-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSSKLVDAIN EVAVSNKDKI ELDGIKDDSF DGHLSITEAT YDVDTFLKPS
60 70 80 90 100
PALSKDWIRK LQKKWDREIT YKGLYEYPET LARTQIRFQR HGLEGKIMGY
110 120 130 140 150
KEVPELIEDL NSKNSSSFLR KPSSKNEFVR GSTSNIPFLA DDSDVDAIAG
160 170 180 190 200
EPSVKMALYG EDGLLQVPPG FSRGLSMTAT STTDNLNDEF DPEKWDTKKV
210 220 230 240 250
KSSNRNFVTI HELNEHLKNV NSKHSEIDDL LPDKRSIVSL PPSTLNLHKQ
260 270 280 290 300
PDYAHVVDSS APIENFQQLV PEMALDFPFE LDNFQKEAIY HLEMGDSVFV
310 320 330 340 350
AAHTSAGKTV VAEYAIALAQ KHMTKAIYTS PIKALSNQKF RDFKHKFEDV
360 370 380 390 400
GILTGDVQVN PEGSCLLMTT EILRSMLYRG ADLIRDVEFV IFDEVHYVND
410 420 430 440 450
LERGVVWEEV IIMLPPHVTL ILLSATVPNT KEFASWVGRT KKKNIYVIST
460 470 480 490 500
LKRPVPLEHY LWVKQNMFKI VDQHGRFLMD GYKSANDALK KPDKPVIAKD
510 520 530 540 550
NKNSARGRGA ARGRGVQTNM MRGRGSAKSV ERRDANTWVH LIGHLHKQNL
560 570 580 590 600
LPVIVFVFSK KRCEEYVDTL TNRDLNNHQE KSEVHVVIEK AVARLKKEDR
610 620 630 640 650
LLPQIGRMRE MLSRGLAVHH GGLLPIIKEI VEILFQRGLV KVLFATETFA
660 670 680 690 700
MGVNMPAKSV VFSGTQKHDG RNFRDLLPGE YTQCSGRAGR RGLDVTGTVI
710 720 730 740 750
ILSRSELPDT ASLRHMIMGP SSKLISQFRL TYNMILNLLR VETLRIEDMI
760 770 780 790 800
KRSFSENVNQ TLVPQHEEKI KSFEEKLSAL KKEMSDVDLK EIKSCLLSSE
810 820 830 840 850
SFKEYTKKMH FRAITTANGK RIFKDGRVIV FQQLDFTRTV GVLLGTSIRT
860 870 880 890 900
NASDCTLEVA YLNPQNNLKR PSDLLAFADA FNDVYDNAIF DESNQFKYGL
910 920 930 940 950
INLSGIERVC NTILRIDSGG IRDRRGGAFR KLSEQFASIK KFSDLLFEEV
960 970 980 990 1000
NWSKVRDFEF CEAFEKRNFL QNKLSGNPII STPNFLTHFA LAYQEYELES
1010 1020 1030 1040 1050
NIDNLSSYIS DQNLELLPDY EQRIKVLQEL GYIDAERTVL LKGRVACEIN
1060 1070 1080 1090 1100
STSELVLTEL ILENSLADFS CEETIALLSA FVFDEKTEVE PTISPHLQKG
1110 1120 1130 1140 1150
KEMILSVAEK VNQIQEHYQV LYFNEGNDFE SQPRFGLMEV CYEWARGMSF
1160 1170 1180 1190 1200
NRITDLTDVL EGSIVRTIIR LDEVLRECRG AARVVGDSSM YTKMEECQNL
1210
IRRNIVFCPS LYM
Length:1,213
Mass (Da):138,028
Last modified:August 1, 1998 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i2F9BE2ABF8068A37
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
CU329672 Genomic DNA Translation: CAA19107.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T41378

NCBI Reference Sequences

More...
RefSeqi
NP_588095.1, NM_001023086.2

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
SPCC550.03c.1; SPCC550.03c.1:pep; SPCC550.03c

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
2538841

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
spo:SPCC550.03c

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU329672 Genomic DNA Translation: CAA19107.1
PIRiT41378
RefSeqiNP_588095.1, NM_001023086.2

3D structure databases

ProteinModelPortaliO59801
SMRiO59801
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi275422, 62 interactors
STRINGi4896.SPCC550.03c.1

PTM databases

iPTMnetiO59801

Proteomic databases

MaxQBiO59801
PaxDbiO59801
PRIDEiO59801

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPCC550.03c.1; SPCC550.03c.1:pep; SPCC550.03c
GeneIDi2538841
KEGGispo:SPCC550.03c

Organism-specific databases

EuPathDBiFungiDB:SPCC550.03c
PomBaseiSPCC550.03c

Phylogenomic databases

HOGENOMiHOG000163048
InParanoidiO59801
KOiK12599
OMAiVIIMLPD
OrthoDBiEOG092C0MRM
PhylomeDBiO59801

Enzyme and pathway databases

ReactomeiR-SPO-429958 mRNA decay by 3' to 5' exoribonuclease

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O59801

Family and domain databases

CDDicd00079 HELICc, 1 hit
InterProiView protein in InterPro
IPR011545 DEAD/DEAH_box_helicase_dom
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR025696 rRNA_proc-arch_dom
IPR016438 Ski2-like
IPR012961 Ski2_C
PfamiView protein in Pfam
PF00270 DEAD, 1 hit
PF08148 DSHCT, 1 hit
PF00271 Helicase_C, 1 hit
PF13234 rRNA_proc-arch, 1 hit
PIRSFiPIRSF005198 Antiviral_helicase_SKI2, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM01142 DSHCT, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSKI2_SCHPO
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: O59801
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: August 1, 1998
Last modified: November 7, 2018
This is version 126 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
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