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Entry version 62 (12 Aug 2020)
Sequence version 1 (28 Jul 2009)
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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Variovorax paradoxus (strain S110)
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>
-Protein inferred from homologyi <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 mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'-direction.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi488MagnesiumUniRule annotation1
Metal bindingi494MagnesiumUniRule annotation1

<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 functionNucleotidyltransferase, RNA-binding, Transferase
LigandMagnesium, Metal-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
VPAR543728:G1GF3-3530-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:
Polyribonucleotide nucleotidyltransferaseUniRule annotation (EC:2.7.7.8UniRule annotation)
Alternative name(s):
Polynucleotide phosphorylaseUniRule annotation
Short name:
PNPaseUniRule annotation
<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:pnpUniRule annotation
Ordered Locus Names:Vapar_3514
<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>OrganismiVariovorax paradoxus (strain S110)
<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 identifieri543728 [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 lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
<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
  • UP000000453 <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 1

<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

Keywords - Cellular componenti

Cytoplasm

<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_10002156721 – 772Polyribonucleotide nucleotidyltransferaseAdd BLAST772

<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

STRING: functional protein association networks

More...
STRINGi
543728.Vapar_3514

<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
C5CT24

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%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>Domaini555 – 614KHUniRule annotationAdd BLAST60
Domaini624 – 692S1 motifUniRule annotationAdd BLAST69

<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 polyribonucleotide nucleotidyltransferase family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG1185, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_004217_2_2_4

KEGG Orthology (KO)

More...
KOi
K00962

Identification of Orthologs from Complete Genome Data

More...
OMAi
RYMHNYN

Database of Orthologous Groups

More...
OrthoDBi
122725at2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.1370.10, 1 hit
3.30.230.70, 2 hits

HAMAP database of protein families

More...
HAMAPi
MF_01595, PNPase, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001247, ExoRNase_PH_dom1
IPR015847, ExoRNase_PH_dom2
IPR036345, ExoRNase_PH_dom2_sf
IPR004087, KH_dom
IPR004088, KH_dom_type_1
IPR036612, KH_dom_type_1_sf
IPR012340, NA-bd_OB-fold
IPR012162, PNPase
IPR027408, PNPase/RNase_PH_dom_sf
IPR015848, PNPase_PH_RNA-bd_bac/org-type
IPR020568, Ribosomal_S5_D2-typ_fold
IPR022967, S1_dom
IPR003029, S1_domain

The PANTHER Classification System

More...
PANTHERi
PTHR11252, PTHR11252, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00013, KH_1, 1 hit
PF03726, PNPase, 1 hit
PF01138, RNase_PH, 2 hits
PF03725, RNase_PH_C, 2 hits
PF00575, S1, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF005499, PNPase, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00322, KH, 1 hit
SM00316, S1, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50249, SSF50249, 1 hit
SSF54211, SSF54211, 2 hits
SSF54791, SSF54791, 1 hit
SSF55666, SSF55666, 2 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR03591, polynuc_phos, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50084, KH_TYPE_1, 1 hit
PS50126, S1, 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.

C5CT24-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSLFNKVTKS FQWGDKTVVM ETGEIARQAS GAVVVDIDGT VILATVVASK
60 70 80 90 100
TAKPGQDFFP LTVDYIEKTY AAGKIPGSFF KREAKPSEHE TLTSRLIDRP
110 120 130 140 150
IRPLFPEGFL NEVHVVIHTL SLNPEVDADI AAMIGVSAAL SISGIPFSGP
160 170 180 190 200
IGAARVGYIN GQYVLNPGQT ARKDSQMDLV VAGTEAAVLM VESEAQQLSE
210 220 230 240 250
EIMLGGVVFG HEQANIAINA IHELVRDAGK PVWDWQAPAE DEAFVAKVKS
260 270 280 290 300
LAEEKLRAVY QIRSKQARTQ ALREANASVM NTLKESGEPF DAGKVNDLLF
310 320 330 340 350
AIESKIVRSQ ILSGEPRIDG RDTRTVRPIE IRNSVLPRTH GSALFTRGET
360 370 380 390 400
QGLVVTTLGT ERDAQRIDAL AGEYEDRFLF HYNMPPFATG EVGRMGSTKR
410 420 430 440 450
REIGHGRLAK RALVAVLPTK EEFPYTIRVV SEITESNGSS SMASVCGGCL
460 470 480 490 500
SMMDAGVPMK AHVAGIAMGL IKEDNRFAVL TDILGDEDHL GDMDFKVAGT
510 520 530 540 550
TNGITALQMD IKIQGITKEI MQVALAQAKE ARMHILGKMQ EAMGEAKTEV
560 570 580 590 600
SQFAPRLTTL KINPEKIRDV IGKGGAVIRG LQEETGTTIN IDEDGTITIA
610 620 630 640 650
STDPEKAEFA KKRIEQITAE VEIGKVYEGP VTKILDFGAL INLLPGKDGL
660 670 680 690 700
LHISQIAHER VEKVTDYLSE GQIVKVKVLE TDEKGRVKLS MKALTERPAG
710 720 730 740 750
MEYSERPPRE DRGDRGDRGG ERRERSDRGD RGGDRGERAP RFNSEQQQQP
760 770
RSNEQQPAPV GEQPYAPRDS QE
Length:772
Mass (Da):84,330
Last modified:July 28, 2009 - 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:i0CE933ACBD8CB6B5
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
CP001635 Genomic DNA Translation: ACS20131.1

NCBI Reference Sequences

More...
RefSeqi
WP_012748611.1, NC_012791.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
ACS20131; ACS20131; Vapar_3514

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
45057772

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
vap:Vapar_3514

<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
CP001635 Genomic DNA Translation: ACS20131.1
RefSeqiWP_012748611.1, NC_012791.1

3D structure databases

SMRiC5CT24
ModBaseiSearch...

Protein-protein interaction databases

STRINGi543728.Vapar_3514

Genome annotation databases

EnsemblBacteriaiACS20131; ACS20131; Vapar_3514
GeneIDi45057772
KEGGivap:Vapar_3514

Phylogenomic databases

eggNOGiCOG1185, Bacteria
HOGENOMiCLU_004217_2_2_4
KOiK00962
OMAiRYMHNYN
OrthoDBi122725at2

Enzyme and pathway databases

BioCyciVPAR543728:G1GF3-3530-MONOMER

Family and domain databases

Gene3Di3.30.1370.10, 1 hit
3.30.230.70, 2 hits
HAMAPiMF_01595, PNPase, 1 hit
InterProiView protein in InterPro
IPR001247, ExoRNase_PH_dom1
IPR015847, ExoRNase_PH_dom2
IPR036345, ExoRNase_PH_dom2_sf
IPR004087, KH_dom
IPR004088, KH_dom_type_1
IPR036612, KH_dom_type_1_sf
IPR012340, NA-bd_OB-fold
IPR012162, PNPase
IPR027408, PNPase/RNase_PH_dom_sf
IPR015848, PNPase_PH_RNA-bd_bac/org-type
IPR020568, Ribosomal_S5_D2-typ_fold
IPR022967, S1_dom
IPR003029, S1_domain
PANTHERiPTHR11252, PTHR11252, 1 hit
PfamiView protein in Pfam
PF00013, KH_1, 1 hit
PF03726, PNPase, 1 hit
PF01138, RNase_PH, 2 hits
PF03725, RNase_PH_C, 2 hits
PF00575, S1, 1 hit
PIRSFiPIRSF005499, PNPase, 1 hit
SMARTiView protein in SMART
SM00322, KH, 1 hit
SM00316, S1, 1 hit
SUPFAMiSSF50249, SSF50249, 1 hit
SSF54211, SSF54211, 2 hits
SSF54791, SSF54791, 1 hit
SSF55666, SSF55666, 2 hits
TIGRFAMsiTIGR03591, polynuc_phos, 1 hit
PROSITEiView protein in PROSITE
PS50084, KH_TYPE_1, 1 hit
PS50126, S1, 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 nameiPNP_VARPS
<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: C5CT24
<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: September 22, 2009
Last sequence update: July 28, 2009
Last modified: August 12, 2020
This is version 62 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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