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Entry version 141 (07 Apr 2021)
Sequence version 2 (05 Dec 2001)
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Protein

Outer membrane porin F

Gene

ompF

Organism
Salmonella typhi
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

Forms pores that allow passive diffusion of small molecules across the outer membrane.

Curated

<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

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 functionPorin
Biological processIon transport, Transport

<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%5Fand%5Ftaxonomy%5Fsection">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:
Outer membrane porin F
Alternative name(s):
Outer membrane protein F
Outer membrane protein S3
Porin OmpF
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:ompF
Synonyms:ompS3
Ordered Locus Names:STY1002, t1935
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiSalmonella typhi
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri90370 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeSalmonella
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000002670 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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
  • UP000000541 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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei23 – 28Beta strandedBy similarity6
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini29PeriplasmicBy similarity1
Transmembranei30 – 45Beta strandedBy similarityAdd BLAST16
Topological domaini46 – 56ExtracellularBy similarityAdd BLAST11
Transmembranei57 – 69Beta strandedBy similarityAdd BLAST13
Topological domaini70 – 71PeriplasmicBy similarity2
Transmembranei72 – 84Beta strandedBy similarityAdd BLAST13
Topological domaini85 – 99ExtracellularBy similarityAdd BLAST15
Transmembranei100 – 108Beta strandedBy similarity9
Topological domaini109PeriplasmicBy similarity1
Transmembranei110 – 117Beta strandedBy similarity8
Topological domaini118 – 154ExtracellularBy similarityAdd BLAST37
Transmembranei155 – 161Beta strandedBy similarity7
Topological domaini162 – 169PeriplasmicBy similarity8
Transmembranei170 – 181Beta strandedBy similarityAdd BLAST12
Topological domaini182 – 192ExtracellularBy similarityAdd BLAST11
Transmembranei193 – 203Beta strandedBy similarityAdd BLAST11
Topological domaini204PeriplasmicBy similarity1
Transmembranei205 – 217Beta strandedBy similarityAdd BLAST13
Topological domaini218 – 230ExtracellularBy similarityAdd BLAST13
Transmembranei231 – 242Beta strandedBy similarityAdd BLAST12
Topological domaini243PeriplasmicBy similarity1
Transmembranei244 – 256Beta strandedBy similarityAdd BLAST13
Topological domaini257 – 272ExtracellularBy similarityAdd BLAST16
Transmembranei273 – 285Beta strandedBy similarityAdd BLAST13
Topological domaini286 – 287PeriplasmicBy similarity2
Transmembranei288 – 301Beta strandedBy similarityAdd BLAST14
Topological domaini302 – 312ExtracellularBy similarityAdd BLAST11
Transmembranei313 – 324Beta strandedBy similarityAdd BLAST12
Topological domaini325 – 326PeriplasmicBy similarity2
Transmembranei327 – 336Beta strandedBy similarity10
Topological domaini337 – 353ExtracellularBy similarityAdd BLAST17
Transmembranei354 – 363Beta strandedBy similarity10

Keywords - Cellular componenti

Cell outer membrane, Membrane

<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 – 22By similarityAdd BLAST22
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000002523823 – 363Outer membrane porin FAdd BLAST341

<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

Unlike E.coli or S.typhimurium both OmpC and OmpF porins are expressed constitutively, i.e. at both high and low osmolarity, under control of OmpR (at protein level).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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homotrimer. Forms mixed heterotrimers with OmpC and with PhoE; other mixed heterotrimers with other porins are also probable.

By similarity

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
220341.16502161

<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

<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 Gram-negative porin family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane beta strand

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG3203, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_058202_0_0_6

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00342, gram_neg_porins, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.40.160.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR033900, Gram_neg_porin_domain
IPR023614, Porin_dom_sf
IPR001897, Porin_gammaproteobac
IPR001702, Porin_Gram-ve
IPR013793, Porin_Gram-ve_CS

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00267, Porin_1, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00183, ECOLIPORIN
PR00182, ECOLNEIPORIN

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00576, GRAM_NEG_PORIN, 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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

Q56113-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MMKRKILAAV IPALLAAATA NAAEIYNKDG NKLDLYGKAV GRHVWTTTGD
60 70 80 90 100
SKNADQTYAQ IGFKGETQIN TDLTGFGQWE YRTKADRAEG EQQNSNLVRL
110 120 130 140 150
AFAGLKYAEV GSIDYGRNYG IVYDVESYTD MAPYFSGETW GGAYTDNYMT
160 170 180 190 200
SRAGGLLTYR NSDFFGLVDG LSFGIQYQGK NQDNHSINSQ NGDGVGYTMA
210 220 230 240 250
YEFDGFGVTA AYSNSKRTND QQDRDGNGDR AESWAVGAKY DANNVYLAAV
260 270 280 290 300
YAETRNMSIV ENTVTDTVEM ANKTQNLEVV AQYQFDFGLR PAISYVQSKG
310 320 330 340 350
KQLNGADGSA DLAKYIQAGA TYYFNKNMNV WVDYRFNLLD ENDYSSSYVG
360
TDDQAAVGIT YQF
Length:363
Mass (Da):40,106
Last modified:December 5, 2001 - v2
<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:iF5059B37EA516859
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti307D → G in CAA61905 (Ref. 1) Curated1

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
X89757 Genomic DNA Translation: CAA61905.1
AL513382 Genomic DNA Translation: CAD05399.1
AE014613 Genomic DNA Translation: AAO69550.1

NCBI Reference Sequences

More...
RefSeqi
NP_455485.1, NC_003198.1
WP_000977709.1, NZ_WSUR01000013.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAO69550; AAO69550; t1935

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
stt:t1935
sty:STY1002

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|220341.7.peg.1009

<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
X89757 Genomic DNA Translation: CAA61905.1
AL513382 Genomic DNA Translation: CAD05399.1
AE014613 Genomic DNA Translation: AAO69550.1
RefSeqiNP_455485.1, NC_003198.1
WP_000977709.1, NZ_WSUR01000013.1

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi220341.16502161

Genome annotation databases

EnsemblBacteriaiAAO69550; AAO69550; t1935
KEGGistt:t1935
sty:STY1002
PATRICifig|220341.7.peg.1009

Phylogenomic databases

eggNOGiCOG3203, Bacteria
HOGENOMiCLU_058202_0_0_6

Family and domain databases

CDDicd00342, gram_neg_porins, 1 hit
Gene3Di2.40.160.10, 1 hit
InterProiView protein in InterPro
IPR033900, Gram_neg_porin_domain
IPR023614, Porin_dom_sf
IPR001897, Porin_gammaproteobac
IPR001702, Porin_Gram-ve
IPR013793, Porin_Gram-ve_CS
PfamiView protein in Pfam
PF00267, Porin_1, 1 hit
PRINTSiPR00183, ECOLIPORIN
PR00182, ECOLNEIPORIN
PROSITEiView protein in PROSITE
PS00576, GRAM_NEG_PORIN, 1 hit

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 nameiOMPF_SALTI
<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: Q56113
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: December 5, 2001
Last modified: April 7, 2021
This is version 141 of the entry and version 2 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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