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UniProtKB - P23842 (PDEA_ECOLI)

Entry version 150 (13 Nov 2019)
Sequence version 2 (27 Apr 2001)
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Protein

Probable cyclic di-GMP phosphodiesterase PdeA

Gene

pdeA

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 transcript 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

Phosphodiesterase (PDE) that catalyzes the hydrolysis of cyclic-di-GMP (c-di-GMP) to 5'-pGpG.By similarity

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<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 ...

<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 functionHydrolase
Ligandc-di-GMP

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:EG11145-MONOMER
ECOL316407:JW5391-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_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 cyclic di-GMP phosphodiesterase PdeACurated (EC:3.1.4.52By similarity)
<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:pdeA1 Publication
Synonyms:yfeA
Ordered Locus Names:b2395, JW5391
<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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'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>Transmembranei17 – 37HelicalSequence analysisAdd BLAST21
Transmembranei41 – 61HelicalSequence analysisAdd BLAST21
Transmembranei83 – 103HelicalSequence analysisAdd BLAST21
Transmembranei126 – 146HelicalSequence analysisAdd BLAST21
Transmembranei163 – 183HelicalSequence analysisAdd BLAST21
Transmembranei214 – 234HelicalSequence analysisAdd BLAST21
Transmembranei238 – 258HelicalSequence analysisAdd BLAST21
Transmembranei289 – 309HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Cell 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 describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001692161 – 729Probable cyclic di-GMP phosphodiesterase PdeAAdd BLAST729

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		P23842

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

More...PaxDbi		P23842

PRoteomics IDEntifications database

More...PRIDEi		P23842

<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

Expressed during exponential and post-exponential growth at both 28 and 37 degrees Celsius. Repressed by RpoS.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		4259186, 204 interactors

Database of interacting proteins

More...DIPi		DIP-12011N

Protein interaction database and analysis system

More...IntActi		P23842, 1 interactor

STRING: functional protein association networks

More...STRINGi		511145.b2395

<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		P23842

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

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>Domaini348 – 476GGDEFPROSITE-ProRule annotationAdd BLAST129
Domaini488 – 729EALPROSITE-ProRule annotationAdd BLAST242

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4108KMM Bacteria
ENOG41100B0 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000122953

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P23842

Database for complete collections of gene phylogenies

More...PhylomeDBi		P23842

Family and domain databases

Conserved Domains Database

More...CDDi		cd01948 EAL, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.20.20.450, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR001633 EAL_dom
IPR035919 EAL_sf
IPR000160 GGDEF_dom
IPR007895 MASE1
IPR029787 Nucleotide_cyclase

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00563 EAL, 1 hit
PF05231 MASE1, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00052 EAL, 1 hit
SM00267 GGDEF, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF141868 SSF141868, 1 hit
SSF55073 SSF55073, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50883 EAL, 1 hit
PS50887 GGDEF, 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.

P23842-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFVEHNLIKN IKIFTLAFTL TVVLIQLSRF ISPLAIIHSS YIFLAWMPLC 
        60         70         80         90        100
VMLSILFIFG WRGVVPVLCG MFCTNLWNFH LSFLQTAVML GSQTFVVLCA 
       110        120        130        140        150
CAILRWQLGT RWRYGLTSRY VWQRLFWLGL VTPIGIKCSM YLVGSFFDFP 
       160        170        180        190        200
LKISTFFGDA DAIFTVVDLL SLFTAVLIYN MLFYYLTRMI VSPHFAQILW 
       210        220        230        240        250
RRDIAPSLGK EKRAFTLSWL AALSVLLLLL CTPYENDFIA GYLVPVFFII 
       260        270        280        290        300
FTLGVGKLRY PFLNLTWAVS TLCLLNYNQN FLQGVETEYS LAFILAVLIS 
       310        320        330        340        350
FSVCLLYMVR IYHRSEWLNR RWHLQALTDP LTLLPNFRAL EQAPEQEAGK 
       360        370        380        390        400
SFCCLRIDNL EFMSRHYGLM MRVHCIRSIC RTLLPLMQEN EKLYQLPGSE 
       410        420        430        440        450
LLLVLSGPET EGRLQHMVNI LNSRQIHWNN TGLDMGYGAA WGRFDGNQET 
       460        470        480        490        500
LQPLLGQLSW LAEQSCAHHH VLALDSREEM VSGQTTKQVL LLNTIRTALD 
       510        520        530        540        550
QGDLLLYAQP IRNKEGEGYD EILARLKYDG GIMTPDKFLP LIAQFNLSAR 
       560        570        580        590        600
FDLQVLESLL KWLATHPCDK KGPRFSVNLM PLTLLQKNIA GRIIRLFKRY 
       610        620        630        640        650
HISPQAVILE ITEEQAFSNA ESSMYNIEQL HKFGFRIAID DFGTGYANYE 
       660        670        680        690        700
RLKRLQADII KIDGVFVKDI VTNTLDAMIV RSITDLAKAK SLSVVAEFVE 
       710        720 
TQQQQALLHK LGVQYLQGYL IGRPQPLAD
Length:729
Mass (Da):83,524
Last modified:April 27, 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:iF1CF1AA15D592650
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAA65719 differs from that shown. Reason: Frameshift.Curated
The sequence AAA65719 differs from that shown. Reason: Erroneous initiation. Extended N-terminus.Curated
The sequence CAA45395 differs from that shown. Reason: Frameshift.Curated
The sequence CAA45395 differs from that shown. Reason: Erroneous initiation. Extended N-terminus.Curated

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
U00096 Genomic DNA Translation: AAC75454.2
AP009048 Genomic DNA Translation: BAA16267.2
M13687 Genomic DNA Translation: AAA65719.1 Sequence problems.
X63976 Genomic DNA Translation: CAA45395.1 Sequence problems.

Protein sequence database of the Protein Information Resource

More...PIRi		H65013
S11411

NCBI Reference Sequences

More...RefSeqi		NP_416896.4, NC_000913.3
WP_000497400.1, NZ_LN832404.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC75454; AAC75454; b2395
BAA16267; BAA16267; BAA16267

Database of genes from NCBI RefSeq genomes

More...GeneIDi		946864

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW5391
eco:b2395

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.4333

<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
U00096 Genomic DNA Translation: AAC75454.2
AP009048 Genomic DNA Translation: BAA16267.2
M13687 Genomic DNA Translation: AAA65719.1 Sequence problems.
X63976 Genomic DNA Translation: CAA45395.1 Sequence problems.
PIRiH65013
S11411
RefSeqiNP_416896.4, NC_000913.3
WP_000497400.1, NZ_LN832404.1

3D structure databases

SMRiP23842
ModBaseiSearch...

Protein-protein interaction databases

BioGridi4259186, 204 interactors
DIPiDIP-12011N
IntActiP23842, 1 interactor
STRINGi511145.b2395

Proteomic databases

jPOSTiP23842
PaxDbiP23842
PRIDEiP23842

Genome annotation databases

EnsemblBacteriaiAAC75454; AAC75454; b2395
BAA16267; BAA16267; BAA16267
GeneIDi946864
KEGGiecj:JW5391
eco:b2395
PATRICifig|1411691.4.peg.4333

Organism-specific databases

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

More...EchoBASEi		EB1135

Phylogenomic databases

eggNOGiENOG4108KMM Bacteria
ENOG41100B0 LUCA
HOGENOMiHOG000122953
InParanoidiP23842
PhylomeDBiP23842

Enzyme and pathway databases

BioCyciEcoCyc:EG11145-MONOMER
ECOL316407:JW5391-MONOMER

Miscellaneous databases

Protein Ontology

More...PROi		PR:P23842

Family and domain databases

CDDicd01948 EAL, 1 hit
Gene3Di3.20.20.450, 1 hit
InterProiView protein in InterPro
IPR001633 EAL_dom
IPR035919 EAL_sf
IPR000160 GGDEF_dom
IPR007895 MASE1
IPR029787 Nucleotide_cyclase
PfamiView protein in Pfam
PF00563 EAL, 1 hit
PF05231 MASE1, 1 hit
SMARTiView protein in SMART
SM00052 EAL, 1 hit
SM00267 GGDEF, 1 hit
SUPFAMiSSF141868 SSF141868, 1 hit
SSF55073 SSF55073, 1 hit
PROSITEiView protein in PROSITE
PS50883 EAL, 1 hit
PS50887 GGDEF, 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 nameiPDEA_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: P23842
Secondary accession number(s): P76529, P76954
<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 1, 1991
Last sequence update: April 27, 2001
Last modified: November 13, 2019
This is version 150 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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
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