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UniProtKB - Q46863 (YGIS_ECOLI)

Entry version 119 (11 Dec 2019)
Sequence version 1 (01 Nov 1996)
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Protein

Probable deoxycholate-binding periplasmic protein YgiS

Gene

ygiS

Organism
Escherichia coli (strain K12)
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>-Experimental evidence at protein leveli <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

Probably part of a deoxycholate transport system. Its expression in the presence of deoxycholate in a ygiS deletion mutant increases intracellular deoxycholate levels and decreases cell growth; higher expression in the presence of deoxycholate inhibits cell growth completely. Bile acid detergents such as deoxycholate are important for host defense against bacterial growth in the gall bladder and duodenum.1 Publication

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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

Biological processTransport

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:YGIS-MONOMER
ECOL316407:JW2988-MONOMER

Protein family/group databases

Transport Classification Database

More...TCDBi		3.A.1.5.41 the atp-binding cassette (abc) superfamily

<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:
Probable deoxycholate-binding periplasmic protein YgiS
<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
Name:ygiS
Ordered Locus Names:b3020, JW2988
<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>OrganismiEscherichia coli (strain K12)
<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 identifieri83333 [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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<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
  • UP000000318 <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
  • UP000000625 Componenti: Chromosome

<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

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Periplasm

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Cells grow better in the presence of the bile acid deoxycholate. Increased membrane stability when incubated for 2 hours in the presence of 4.5% deoxycholate. Increased cell survival in the presence of 20% deoxycholate.1 Publication

<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 denotes the presence of an N-terminal signal peptide.<p><a href='/help/signal' target='_top'>More...</a></p>Signal peptidei1 – 20Sequence analysisAdd BLAST20
<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_000003180621 – 535Probable deoxycholate-binding periplasmic protein YgiSAdd BLAST515

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		Q46863

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

More...PaxDbi		Q46863

PRoteomics IDEntifications database

More...PRIDEi		Q46863

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Repressed by the toxin-antitoxin system MqsR-MqsA; this mRNA is degraded by mRNA interferase MqsR.1 Publication

<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

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...BioGridi		4259246, 6 interactors

STRING: functional protein association networks

More...STRINGi		511145.b3020

<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

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

More...SMRi		Q46863

Database of comparative protein structure models

More...ModBasei		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

<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 bacterial solute-binding protein 5 family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4108J59 Bacteria
COG4166 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000179191

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q46863

KEGG Orthology (KO)

More...KOi		K02035

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q46863

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR030678 Peptide/Ni-bd
IPR039424 SBP_5
IPR000914 SBP_5_dom

The PANTHER Classification System

More...PANTHERi		PTHR30290 PTHR30290, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00496 SBP_bac_5, 1 hit

PIRSF; a whole-protein classification database

More...PIRSFi		PIRSF002741 MppA, 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>. The information is filed in different subsections. The current subsections and their content are listed below:<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.

<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 in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

Q46863-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYTRNLLWLV SLVSAAPLYA ADVPANTPLA PQQVFRYNNH SDPGTLDPQK 
        60         70         80         90        100
VEENTAAQIV LDLFEGLVWM DGEGQVQPAQ AERWEILDGG KRYIFHLRSG 
       110        120        130        140        150
LQWSDGQPLT AEDFVLGWQR AVDPKTASPF AGYLAQAHIN NAAAIVAGKA 
       160        170        180        190        200
DVTSLGVKAT DDRTLEVTLE QPVPWFTTML AWPTLFPVPH HVIAKHGDSW 
       210        220        230        240        250
SKPENMVYNG AFVLDQWVVN EKITARKNPK YRDAQHTVLQ QVEYLALDNS 
       260        270        280        290        300
VTGYNRYRAG EVDLTWVPAQ QIPAIEKSLP GELRIIPRLN SEYYNFNLEK 
       310        320        330        340        350
PPFNDVRVRR ALYLTVDRQL IAQKVLGLRT PATTLTPPEV KGFSATTFDE 
       360        370        380        390        400
LQKPMSERVA MAKALLKQAG YDASHPLRFE LFYNKYDLHE KTAIALSSEW 
       410        420        430        440        450
KKWLGAQVTL RTMEWKTYLD ARRAGDFMLS RQSWDATYND ASSFLNTLKS 
       460        470        480        490        500
DSEENVGHWK NAQYDALLNQ ATQITDATKR NALYQQAEVI INQQAPLIPI 
       510        520        530 
YYQPLIKLLK PYVGGFPLHN PQDYVYSKEL YIKAH
Length:535
Mass (Da):60,694
Last modified:November 1, 1996 - 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:iB0F56723071A54EF
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
U28377 Genomic DNA Translation: AAA69188.1
U00096 Genomic DNA Translation: AAC76056.1
AP009048 Genomic DNA Translation: BAE77076.1

Protein sequence database of the Protein Information Resource

More...PIRi		B65089

NCBI Reference Sequences

More...RefSeqi		NP_417492.1, NC_000913.3
WP_001295629.1, NZ_SSZK01000023.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76056; AAC76056; b3020
BAE77076; BAE77076; BAE77076

Database of genes from NCBI RefSeq genomes

More...GeneIDi		947140

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW2988
eco:b3020

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.3710

<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
U28377 Genomic DNA Translation: AAA69188.1
U00096 Genomic DNA Translation: AAC76056.1
AP009048 Genomic DNA Translation: BAE77076.1
PIRiB65089
RefSeqiNP_417492.1, NC_000913.3
WP_001295629.1, NZ_SSZK01000023.1

3D structure databases

SMRiQ46863
ModBaseiSearch...

Protein-protein interaction databases

BioGridi4259246, 6 interactors
STRINGi511145.b3020

Protein family/group databases

TCDBi3.A.1.5.41 the atp-binding cassette (abc) superfamily

Proteomic databases

jPOSTiQ46863
PaxDbiQ46863
PRIDEiQ46863

Genome annotation databases

EnsemblBacteriaiAAC76056; AAC76056; b3020
BAE77076; BAE77076; BAE77076
GeneIDi947140
KEGGiecj:JW2988
eco:b3020
PATRICifig|1411691.4.peg.3710

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...EchoBASEi		EB2839

Phylogenomic databases

eggNOGiENOG4108J59 Bacteria
COG4166 LUCA
HOGENOMiHOG000179191
InParanoidiQ46863
KOiK02035
PhylomeDBiQ46863

Enzyme and pathway databases

BioCyciEcoCyc:YGIS-MONOMER
ECOL316407:JW2988-MONOMER

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q46863

Family and domain databases

InterProiView protein in InterPro
IPR030678 Peptide/Ni-bd
IPR039424 SBP_5
IPR000914 SBP_5_dom
PANTHERiPTHR30290 PTHR30290, 1 hit
PfamiView protein in Pfam
PF00496 SBP_bac_5, 1 hit
PIRSFiPIRSF002741 MppA, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		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 nameiYGIS_ECOLI
<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: Q46863
Secondary accession number(s): Q2M9I0
<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: July 15, 1999
Last sequence update: November 1, 1996
Last modified: December 11, 2019
This is version 119 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 programProkaryotic 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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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