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Entry version 117 (08 May 2019)
Sequence version 1 (01 Nov 1997)
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Protein

DNA primase

Gene

dnaG

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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 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 polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.UniRule annotation

<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

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ 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 bindingi252Magnesium 1; catalyticUniRule annotation1
Metal bindingi296Magnesium 1; catalyticUniRule annotation1
Metal bindingi296Magnesium 2UniRule annotation1
Metal bindingi298Magnesium 2UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri37 – 61CHC2-typeUniRule annotationAdd BLAST25

<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

  • DNA binding Source: UniProtKB-KW
  • DNA primase activity Source: GO_Central
  • zinc ion binding Source: UniProtKB-UniRule

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 functionDNA-binding, Nucleotidyltransferase, Transferase
Biological processDNA replication, Transcription
LigandMagnesium, Metal-binding, Zinc

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
HPY:HP0012-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:
DNA primaseUniRule annotation (EC:2.7.7.-UniRule annotation)
<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:dnaGUniRule annotation
Ordered Locus Names:HP_0012
<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>OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
<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 identifieri85962 [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 lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
<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
  • UP000000429 <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

<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

DNA-directed RNA polymerase, Primosome

<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_00001804951 – 559DNA primaseAdd BLAST559

Proteomic databases

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

More...
PaxDbi
P56064

PRoteomics IDEntifications database

More...
PRIDEi
P56064

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer. Interacts with DnaB.UniRule annotation

Protein-protein interaction databases

Database of interacting proteins

More...
DIPi
DIP-3301N

Protein interaction database and analysis system

More...
IntActi
P56064, 9 interactors

Molecular INTeraction database

More...
MINTi
P56064

STRING: functional protein association networks

More...
STRINGi
85962.C694_00055

<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

1559
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4EHSX-ray1.78A/B413-559[»]

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

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SMRi
P56064

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
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>Domaini246 – 327ToprimUniRule annotationAdd BLAST82

<p>This subsection of the ‘Family and domains’ section provides general information on the biological role of a domain. The term ‘domain’ is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

Contains an N-terminal zinc-binding domain, a central core domain that contains the primase activity, and a C-terminal DnaB-binding domain.UniRule annotation

<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 DnaG primase family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri37 – 61CHC2-typeUniRule annotationAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG4105C9G Bacteria
COG0358 LUCA

KEGG Orthology (KO)

More...
KOi
K02316

Identification of Orthologs from Complete Genome Data

More...
OMAi
RIMFPIY

Family and domain databases

Conserved Domains Database

More...
CDDi
cd03364 TOPRIM_DnaG_primases, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.860.10, 1 hit
3.90.580.10, 1 hit
3.90.980.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00974 DNA_primase_DnaG, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR016136 DNA_helicase_N/primase_C
IPR013264 DNA_primase_core_N
IPR037068 DNA_primase_core_N_sf
IPR006295 DNA_primase_DnaG
IPR036977 DNA_primase_Znf_CHC2
IPR030846 DnaG_bac
IPR031988 DnaG_HBD
IPR034151 TOPRIM_DnaG_bac
IPR006171 TOPRIM_domain
IPR002694 Znf_CHC2

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF16730 DnaGprimase_HBD, 1 hit
PF13662 Toprim_4, 1 hit
PF08275 Toprim_N, 1 hit
PF01807 zf-CHC2, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF002811 DnaG, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00493 TOPRIM, 1 hit
SM00400 ZnF_CHCC, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR01391 dnaG, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50880 TOPRIM, 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>.<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.

P56064-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MILKSSIDRL LQTIDIVEVI SSYVNLRKSG SSYMACCPFH EERSASFSVN
60 70 80 90 100
QIKGFYHCFG CGASGDSIKF VMAFEKLSFV EALEKLAHRF NIVLEYDKGV
110 120 130 140 150
YYDHKEDYHL LEMVSSLYQE ELFNAPFFLN YLQKRGLSLE SIKAFKLGLC
160 170 180 190 200
TNRIDYGIEN KGLNKDKLIE LGVLGKSDND QKTYLRFLDR IMFPIYSPSA
210 220 230 240 250
QVVGFGGRTL KEKAAKYINS PQSKLFDKSS LLYGYHLAKE HIYKQKQVIV
260 270 280 290 300
TEGYLDVILL HQAGFKNAIA TLGTALTPSH LPLLKKGDPE ILLSYDGDKA
310 320 330 340 350
GRNAAYKASL MLAKEQRRGG VILFENNLDP ADMIANGQIE TLKNWLSHPM
360 370 380 390 400
AFIEFVLRRM ADSYLLDDPL EKDKALKEML GFLKNFSLLL QSEYKPLIAT
410 420 430 440 450
LLQAPLHVLG IRERVSFQPF YPKTEKPNRP QRFAHVSSAP SLEFLEKLVI
460 470 480 490 500
RYLLEDRSLL DLAVGYIHSG VFLHKKQEFD ALCQEKLDDP KLVALLLDAN
510 520 530 540 550
LPLKKGGFEK ELRLLILRYF ERQLKEIPKS SLPFSEKMIC LKKARQAIMK

LKQGELVAI
Length:559
Mass (Da):63,723
Last modified:November 1, 1997 - 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:iE5EB7F2F0BB38170
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
AE000511 Genomic DNA Translation: AAD07082.1

Protein sequence database of the Protein Information Resource

More...
PIRi
D64521

NCBI Reference Sequences

More...
RefSeqi
NP_206814.1, NC_000915.1
WP_000601638.1, NC_018939.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAD07082; AAD07082; HP_0012

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
899091

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
heo:C694_00055
hpy:HP0012

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|85962.47.peg.11

<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
AE000511 Genomic DNA Translation: AAD07082.1
PIRiD64521
RefSeqiNP_206814.1, NC_000915.1
WP_000601638.1, NC_018939.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4EHSX-ray1.78A/B413-559[»]
SMRiP56064
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-3301N
IntActiP56064, 9 interactors
MINTiP56064
STRINGi85962.C694_00055

Proteomic databases

PaxDbiP56064
PRIDEiP56064

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD07082; AAD07082; HP_0012
GeneIDi899091
KEGGiheo:C694_00055
hpy:HP0012
PATRICifig|85962.47.peg.11

Phylogenomic databases

eggNOGiENOG4105C9G Bacteria
COG0358 LUCA
KOiK02316
OMAiRIMFPIY

Enzyme and pathway databases

BioCyciHPY:HP0012-MONOMER

Family and domain databases

CDDicd03364 TOPRIM_DnaG_primases, 1 hit
Gene3Di1.10.860.10, 1 hit
3.90.580.10, 1 hit
3.90.980.10, 1 hit
HAMAPiMF_00974 DNA_primase_DnaG, 1 hit
InterProiView protein in InterPro
IPR016136 DNA_helicase_N/primase_C
IPR013264 DNA_primase_core_N
IPR037068 DNA_primase_core_N_sf
IPR006295 DNA_primase_DnaG
IPR036977 DNA_primase_Znf_CHC2
IPR030846 DnaG_bac
IPR031988 DnaG_HBD
IPR034151 TOPRIM_DnaG_bac
IPR006171 TOPRIM_domain
IPR002694 Znf_CHC2
PfamiView protein in Pfam
PF16730 DnaGprimase_HBD, 1 hit
PF13662 Toprim_4, 1 hit
PF08275 Toprim_N, 1 hit
PF01807 zf-CHC2, 1 hit
PIRSFiPIRSF002811 DnaG, 1 hit
SMARTiView protein in SMART
SM00493 TOPRIM, 1 hit
SM00400 ZnF_CHCC, 1 hit
TIGRFAMsiTIGR01391 dnaG, 1 hit
PROSITEiView protein in PROSITE
PS50880 TOPRIM, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiDNAG_HELPY
<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: P56064
<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, 1997
Last sequence update: November 1, 1997
Last modified: May 8, 2019
This is version 117 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, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Helicobacter pylori
    Helicobacter pylori (strain 26695): entries and gene names
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