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UniProtKB - P37387 (XYLF_ECOLI)

Entry version 154 (25 May 2022)
Sequence version 1 (01 Oct 1994)
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Protein

D-xylose-binding periplasmic protein

Gene

xylF

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:4 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

Involved in the high-affinity D-xylose membrane transport system. Binds with high affinity to xylose.

Miscellaneous

E.coli has two D-xylose transport systems that accumulate sugar against a concentration gradient: the XylE system which utilizes the electrochemical gradient of protons and that is insensitive to cold osmotic shock and the XylF system that uses a high-energy phosphate compound and is sensitive to cold osmotic shock.

<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

  • carbohydrate binding Source: GO_Central
  • monosaccharide binding Source: EcoCyc
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 processSugar transport, Transport

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:XYLF-MONOMER

Protein family/group databases

Transport Classification Database

More...TCDBi		3.A.1.2.4, 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%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:
D-xylose-binding periplasmic protein
<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:xylF
Synonyms:xylT
Ordered Locus Names:b3566, JW3538
<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>OrganismiEscherichia coli (strain K12)
<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 identifieri83333 [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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<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
  • UP000000318 <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
  • 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

Keywords - Cellular componenti

Periplasm

<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 – 233 PublicationsAdd BLAST23
<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_000003173824 – 330D-xylose-binding periplasmic proteinAdd BLAST307

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		P37387

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

More...PaxDbi		P37387

PRoteomics IDEntifications database

More...PRIDEi		P37387

<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		4262541, 29 interactors
852398, 1 interactor

ComplexPortal: manually curated resource of macromolecular complexes

More...ComplexPortali		CPX-4388, Xylose ABC transporter complex

Protein interaction database and analysis system

More...IntActi		P37387, 4 interactors

STRING: functional protein association networks

More...STRINGi		511145.b3566

<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

Secondary structure

1330
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

AlphaFold Protein Structure Database

More...AlphaFoldDBi		P37387

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

More...SMRi		P37387

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		P37387

<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 2 family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG4213, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_037628_13_0_6

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P37387

Identification of Orthologs from Complete Genome Data

More...OMAi		YTDGWLP

Database for complete collections of gene phylogenies

More...PhylomeDBi		P37387

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR028082, Peripla_BP_I
IPR025997, SBP_2_dom
IPR013456, XylF

Pfam protein domain database

More...Pfami		View protein in Pfam
PF13407, Peripla_BP_4, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF53822, SSF53822, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02634, xylF, 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.

P37387-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKIKNILLTL CTSLLLTNVA AHAKEVKIGM AIDDLRLERW QKDRDIFVKK 
        60         70         80         90        100
AESLGAKVFV QSANGNEETQ MSQIENMINR GVDVLVIIPY NGQVLSNVVK 
       110        120        130        140        150
EAKQEGIKVL AYDRMINDAD IDFYISFDNE KVGELQAKAL VDIVPQGNYF 
       160        170        180        190        200
LMGGSPVDNN AKLFRAGQMK VLKPYVDSGK IKVVGDQWVD GWLPENALKI 
       210        220        230        240        250
MENALTANNN KIDAVVASND ATAGGAIQAL SAQGLSGKVA ISGQDADLAG 
       260        270        280        290        300
IKRIAAGTQT MTVYKPITLL ANTAAEIAVE LGNGQEPKAD TTLNNGLKDV 
       310        320        330
PSRLLTPIDV NKNNIKDTVI KDGFHKESEL
Length:330
Mass (Da):35,734
Last modified:October 1, 1994 - 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:iE0AFC0326511B056
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
U00039 Genomic DNA Translation: AAB18543.1
U00096 Genomic DNA Translation: AAC76590.1
AP009048 Genomic DNA Translation: BAE77727.1

Protein sequence database of the Protein Information Resource

More...PIRi		S47787

NCBI Reference Sequences

More...RefSeqi		NP_418023.1, NC_000913.3
WP_000694881.1, NZ_SSZK01000041.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76590; AAC76590; b3566
BAE77727; BAE77727; BAE77727

Database of genes from NCBI RefSeq genomes

More...GeneIDi		67417211
948090

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW3538
eco:b3566

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.3146

<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
U00039 Genomic DNA Translation: AAB18543.1
U00096 Genomic DNA Translation: AAC76590.1
AP009048 Genomic DNA Translation: BAE77727.1
PIRiS47787
RefSeqiNP_418023.1, NC_000913.3
WP_000694881.1, NZ_SSZK01000041.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3M9WX-ray2.15A24-330[»]
3M9XX-ray2.20A24-330[»]
3MA0X-ray2.20A/B/C24-330[»]
AlphaFoldDBiP37387
SMRiP37387
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi4262541, 29 interactors
852398, 1 interactor
ComplexPortaliCPX-4388, Xylose ABC transporter complex
IntActiP37387, 4 interactors
STRINGi511145.b3566

Protein family/group databases

TCDBi3.A.1.2.4, the atp-binding cassette (abc) superfamily

Proteomic databases

jPOSTiP37387
PaxDbiP37387
PRIDEiP37387

Genome annotation databases

EnsemblBacteriaiAAC76590; AAC76590; b3566
BAE77727; BAE77727; BAE77727
GeneIDi67417211
948090
KEGGiecj:JW3538
eco:b3566
PATRICifig|1411691.4.peg.3146

Organism-specific databases

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

More...EchoBASEi		EB4153

Phylogenomic databases

eggNOGiCOG4213, Bacteria
HOGENOMiCLU_037628_13_0_6
InParanoidiP37387
OMAiYTDGWLP
PhylomeDBiP37387

Enzyme and pathway databases

BioCyciEcoCyc:XYLF-MONOMER

Miscellaneous databases

EvolutionaryTraceiP37387

Protein Ontology

More...PROi		PR:P37387

Family and domain databases

InterProiView protein in InterPro
IPR028082, Peripla_BP_I
IPR025997, SBP_2_dom
IPR013456, XylF
PfamiView protein in Pfam
PF13407, Peripla_BP_4, 1 hit
SUPFAMiSSF53822, SSF53822, 1 hit
TIGRFAMsiTIGR02634, xylF, 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 nameiXYLF_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: P37387
Secondary accession number(s): Q2M7M9
<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: October 1, 1994
Last sequence update: October 1, 1994
Last modified: May 25, 2022
This is version 154 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

3D-structure, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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