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UniProtKB - P16684 (PHNF_ECOLI)

Entry version 158 (25 May 2022)
Sequence version 1 (01 Aug 1990)
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Protein

Probable transcriptional regulator PhnF

Gene

phnF

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

Annotation score:2 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

Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.

Miscellaneous

The sequence shown is that of strains K12 and B.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi38 – 57H-T-H motifPROSITE-ProRule annotationAdd BLAST20

<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

Molecular functionDNA-binding
Biological processAlkylphosphonate uptake, Transcription, Transcription regulation

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:EG10715-MONOMER

<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:
Probable transcriptional regulator PhnF
<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:phnF
Ordered Locus Names:b4102, JW4063
<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 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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000506671 – 241Probable transcriptional regulator PhnFAdd BLAST241

Proteomic databases

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

More...PaxDbi		P16684

PRoteomics IDEntifications database

More...PRIDEi		P16684

<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		4263093, 10 interactors

Protein interaction database and analysis system

More...IntActi		P16684, 2 interactors

STRING: functional protein association networks

More...STRINGi		511145.b4102

<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

1241
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

AlphaFold Protein Structure Database

More...AlphaFoldDBi		P16684

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

More...SMRi		P16684

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		P16684

<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%5Fand%5Fdomains%5Fsection">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>Domaini11 – 78HTH gntR-typePROSITE-ProRule annotationAdd BLAST68

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG2188, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_063236_2_2_6

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P16684

Identification of Orthologs from Complete Genome Data

More...OMAi		HRPDKFR

Database for complete collections of gene phylogenies

More...PhylomeDBi		P16684

Family and domain databases

Conserved Domains Database

More...CDDi		cd07377, WHTH_GntR, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.10.10, 1 hit
3.40.1410.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR028978, Chorismate_lyase_/UTRA_dom_sf
IPR012702, CP_lyase_PhnF
IPR000524, Tscrpt_reg_HTH_GntR
IPR011663, UTRA
IPR036388, WH-like_DNA-bd_sf
IPR036390, WH_DNA-bd_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00392, GntR, 1 hit
PF07702, UTRA, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR00035, HTHGNTR

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00345, HTH_GNTR, 1 hit
SM00866, UTRA, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF46785, SSF46785, 1 hit
SSF64288, SSF64288, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02325, C_P_lyase_phnF, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50949, HTH_GNTR, 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.

P16684-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MHLSTHPTSY PTRYQEIAAK LEQELRQHYR CGDYLPAEQQ LAARFEVNRH 
        60         70         80         90        100
TLRRAIDQLV EKGWVQRRQG VGVLVLMRPF DYPLNAQARF SQNLLDQGSH 
       110        120        130        140        150
PTSEKLLSVL RPASGHVADA LGITEGENVI HLRTLRRVNG VALCLIDHYF 
       160        170        180        190        200
ADLTLWPTLQ RFDSGSLHDF LREQTGIALR RSQTRISARR AQAKECQRLE 
       210        220        230        240 
IPNMSPLLCV RTLNHRDGES SPAEYSVSLT RADMIEFTME H
Length:241
Mass (Da):27,621
Last modified:August 1, 1990 - 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:iF1A24763A84D574A
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
J05260 Genomic DNA Translation: AAA24343.1
D90227 Genomic DNA Translation: BAA14266.1
U14003 Genomic DNA Translation: AAA97001.1
U00096 Genomic DNA Translation: AAC77063.1
AP009048 Genomic DNA Translation: BAE78105.1

Protein sequence database of the Protein Information Resource

More...PIRi		G35718

NCBI Reference Sequences

More...RefSeqi		NP_418526.1, NC_000913.3
WP_001295387.1, NZ_STEB01000014.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC77063; AAC77063; b4102
BAE78105; BAE78105; BAE78105

Database of genes from NCBI RefSeq genomes

More...GeneIDi		58459677
948617

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW4063
eco:b4102

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.2598

<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
J05260 Genomic DNA Translation: AAA24343.1
D90227 Genomic DNA Translation: BAA14266.1
U14003 Genomic DNA Translation: AAA97001.1
U00096 Genomic DNA Translation: AAC77063.1
AP009048 Genomic DNA Translation: BAE78105.1
PIRiG35718
RefSeqiNP_418526.1, NC_000913.3
WP_001295387.1, NZ_STEB01000014.1

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
2FA1X-ray1.70A/B85-241[»]
AlphaFoldDBiP16684
SMRiP16684
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi4263093, 10 interactors
IntActiP16684, 2 interactors
STRINGi511145.b4102

Proteomic databases

PaxDbiP16684
PRIDEiP16684

Genome annotation databases

EnsemblBacteriaiAAC77063; AAC77063; b4102
BAE78105; BAE78105; BAE78105
GeneIDi58459677
948617
KEGGiecj:JW4063
eco:b4102
PATRICifig|1411691.4.peg.2598

Organism-specific databases

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

More...EchoBASEi		EB0709

Phylogenomic databases

eggNOGiCOG2188, Bacteria
HOGENOMiCLU_063236_2_2_6
InParanoidiP16684
OMAiHRPDKFR
PhylomeDBiP16684

Enzyme and pathway databases

BioCyciEcoCyc:EG10715-MONOMER

Miscellaneous databases

EvolutionaryTraceiP16684

Protein Ontology

More...PROi		PR:P16684

Family and domain databases

CDDicd07377, WHTH_GntR, 1 hit
Gene3Di1.10.10.10, 1 hit
3.40.1410.10, 1 hit
InterProiView protein in InterPro
IPR028978, Chorismate_lyase_/UTRA_dom_sf
IPR012702, CP_lyase_PhnF
IPR000524, Tscrpt_reg_HTH_GntR
IPR011663, UTRA
IPR036388, WH-like_DNA-bd_sf
IPR036390, WH_DNA-bd_sf
PfamiView protein in Pfam
PF00392, GntR, 1 hit
PF07702, UTRA, 1 hit
PRINTSiPR00035, HTHGNTR
SMARTiView protein in SMART
SM00345, HTH_GNTR, 1 hit
SM00866, UTRA, 1 hit
SUPFAMiSSF46785, SSF46785, 1 hit
SSF64288, SSF64288, 1 hit
TIGRFAMsiTIGR02325, C_P_lyase_phnF, 1 hit
PROSITEiView protein in PROSITE
PS50949, HTH_GNTR, 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 nameiPHNF_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: P16684
Secondary accession number(s): Q2M6K1
<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: August 1, 1990
Last sequence update: August 1, 1990
Last modified: May 25, 2022
This is version 158 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, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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