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UniProtKB - P11124 (RDRP_BPPH6)

Entry version 104 (22 Apr 2020)
Sequence version 3 (23 Jan 2007)
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Protein

RNA-directed RNA polymerase

Gene

P2

Organism
Pseudomonas phage phi6 (Bacteriophage phi-6)
Status
Reviewed-Annotation score:

Annotation score:5 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

Rna-dependent RNA polymerase part of the packaging complex that packages the viral RNA segments, replicate them into a double-stranded form and transcribe them.

Caution

Was originally thought to be a capsid protein.1 Publication

<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+, Mn2+

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 bindingi454Magnesium1
Metal bindingi491Magnesium1
Metal bindingi495Magnesium; via carbonyl oxygen1

<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 functionNucleotidyltransferase, RNA-directed RNA polymerase, Transferase
Biological processViral RNA replication
LigandMagnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...BRENDAi		2.7.7.48 718

<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:
RNA-directed RNA polymerase (EC:2.7.7.48)
Alternative name(s):
Protein P2
<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:P2
<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>OrganismiPseudomonas phage phi6 (Bacteriophage phi-6)
<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 identifieri10879 [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 lineageiViruses › Riboviria › Cystoviridae › Cystovirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiPseudomonas savastanoi pv. phaseolicola (Pseudomonas syringae pv. phaseolicola) [TaxID: 319]
<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
  • UP000002610 <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: Genome

<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

  • Virion
    • Note: Found in the capsid (12 copies). Prior to RNA packaging, localizes on the inner procapsid surface near the three-fold axis of symmetry.

GO - Cellular componenti

  • virion Source: UniProtKB-SubCell
Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Virion

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Chemistry databases

Drug and drug target database

More...DrugBanki		DB04137 Guanosine-5'-Triphosphate

<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 <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemoved; by host
<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_00001646352 – 665RNA-directed RNA polymeraseAdd BLAST664

<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

Part of the packaging complex composed of RDRP, P4 and P7.

Interacts with P7 (Probable).

1 Publication

<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

1665
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...SMRi		P11124

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		P11124

<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>Domaini310 – 485RdRp catalyticPROSITE-ProRule annotationAdd BLAST176

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.490.60, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR016406 Cystovir_RNA-dir_pol
IPR043110 Cystovir_RNA-dir_pol_N
IPR001205 RNA-dir_pol_C
IPR007096 RNA-dir_Rpol_phage_catalytic

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00680 RdRP_1, 1 hit

PIRSF; a whole-protein classification database

More...PIRSFi		PIRSF004131 RNA_pol_phage_P2, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50522 RDRP_PHAGE, 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.

P11124-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPRRAPAFPL SDIKAQMLFA NNIKAQQASK RSFKEGAIET YEGLLSVDPR 
        60         70         80         90        100
FLSFKNELSR YLTDHFPANV DEYGRVYGNG VRTNFFGMRH MNGFPMIPAT 
       110        120        130        140        150
WPLASNLKKR ADADLADGPV SERDNLLFRA AVRLMFSDLE PVPLKIRKGS 
       160        170        180        190        200
STCIPYFSND MGTKIEIAER ALEKAEEAGN LMLQGKFDDA YQLHQMGGAY 
       210        220        230        240        250
YVVYRAQSTD AITLDPKTGK FVSKDRMVAD FEYAVTGGEQ GSLFAASKDA 
       260        270        280        290        300
SRLKEQYGID VPDGFFCERR RTAMGGPFAL NAPIMAVAQP VRNKIYSKYA 
       310        320        330        340        350
YTFHHTTRLN KEEKVKEWSL CVATDVSDHD TFWPGWLRDL ICDELLNMGY 
       360        370        380        390        400
APWWVKLFET SLKLPVYVGA PAPEQGHTLL GDPSNPDLEV GLSSGQGATD 
       410        420        430        440        450
LMGTLLMSIT YLVMQLDHTA PHLNSRIKDM PSACRFLDSY WQGHEEIRQI 
       460        470        480        490        500
SKSDDAILGW TKGRALVGGH RLFEMLKEGK VNPSPYMKIS YEHGGAFLGD 
       510        520        530        540        550
ILLYDSRREP GSAIFVGNIN SMLNNQFSPE YGVQSGVRDR SKRKRPFPGL 
       560        570        580        590        600
AWASMKDTYG ACPIYSDVLE AIERCWWNAF GESYRAYRED MLKRDTLELS 
       610        620        630        640        650
RYVASMARQA GLAELTPIDL EVLADPNKLQ YKWTEADVSA NIHEVLMHGV 
       660 
SVEKTERFLR SVMPR
Length:665
Mass (Da):74,922
Last modified:January 23, 2007 - v3
<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:iF785B034C85DD5D2
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
M17461 Genomic RNA Translation: AAA32355.1

Protein sequence database of the Protein Information Resource

More...PIRi		B29885 P2BPF6

NCBI Reference Sequences

More...RefSeqi		NP_620346.1, NC_003715.1

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...GeneIDi		956436

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		vg:956436

<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
M17461 Genomic RNA Translation: AAA32355.1
PIRiB29885 P2BPF6
RefSeqiNP_620346.1, NC_003715.1

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
1HHSX-ray2.00A/B/C2-665[»]
1HHTX-ray2.90P/Q/R2-665[»]
1HI0X-ray3.00P/Q/R2-665[»]
1HI1X-ray3.00A/B/C2-665[»]
1HI8X-ray2.50A/B2-665[»]
1UVIX-ray2.15A/B/C2-665[»]
1UVJX-ray1.90A/B/C2-665[»]
1UVKX-ray2.45A/C/E2-665[»]
1UVLX-ray2.00A/C/E2-665[»]
1UVMX-ray2.00A/B/C2-665[»]
1UVNX-ray3.00A/C/E2-665[»]
1WACX-ray3.00A/B/C2-665[»]
2JL9X-ray3.20A/B/C1-665[»]
2JLFX-ray3.20A/B/C2-665[»]
2JLGX-ray2.80A/B/C2-665[»]
4A8FX-ray3.30A/B/C1-665[»]
4A8KX-ray3.50A/B/C1-665[»]
4A8MX-ray2.92P/Q/R1-665[»]
4A8OX-ray2.67A/B/C1-665[»]
4A8QX-ray3.06A/B/C1-665[»]
4A8SX-ray2.90A/B/C1-665[»]
4A8WX-ray3.04A/B/C1-665[»]
4A8YX-ray3.41A/B/C1-665[»]
4B02X-ray3.30A/B/C2-665[»]
5FJ6electron microscopy7.90A2-665[»]
5FJ7electron microscopy7.90C2-665[»]
SMRiP11124
ModBaseiSearch...
PDBe-KBiSearch...

Chemistry databases

DrugBankiDB04137 Guanosine-5'-Triphosphate

Genome annotation databases

GeneIDi956436
KEGGivg:956436

Enzyme and pathway databases

BRENDAi2.7.7.48 718

Miscellaneous databases

EvolutionaryTraceiP11124

Family and domain databases

Gene3Di1.10.490.60, 1 hit
InterProiView protein in InterPro
IPR016406 Cystovir_RNA-dir_pol
IPR043110 Cystovir_RNA-dir_pol_N
IPR001205 RNA-dir_pol_C
IPR007096 RNA-dir_Rpol_phage_catalytic
PfamiView protein in Pfam
PF00680 RdRP_1, 1 hit
PIRSFiPIRSF004131 RNA_pol_phage_P2, 1 hit
PROSITEiView protein in PROSITE
PS50522 RDRP_PHAGE, 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 nameiRDRP_BPPH6
<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: P11124
<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: July 1, 1989
Last sequence update: January 23, 2007
Last modified: April 22, 2020
This is version 104 of the entry and version 3 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 programViral 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
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