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UniProtKB - P56176 (NNR_HELPY)

Entry version 113 (11 Dec 2019)
Sequence version 1 (01 Nov 1997)
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Protein

Bifunctional NAD(P)H-hydrate repair enzyme Nnr

Gene

nnr

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed-Annotation score:

Annotation score:4 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

Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration (By similarity).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>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

K+By similarityNote: Binds 1 potassium ion per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 bindingi57PotassiumBy similarity1
Metal bindingi120PotassiumBy similarity1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei151NAD(P)HX (for epimerase activity)By similarity1
Metal bindingi154PotassiumBy similarity1
Binding sitei300NAD(P)HX (for dehydratase activity); via amide nitrogenBy similarity1
Binding sitei414NAD(P)HX (for dehydratase activity)By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi385 – 389ADPBy similarity5
Nucleotide bindingi404 – 413ADPBy similarity10

<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 functionIsomerase, Lyase, Multifunctional enzyme
LigandATP-binding, Metal-binding, NAD, NADP, Nucleotide-binding, Potassium

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		HPY:HP1363-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:
Bifunctional NAD(P)H-hydrate repair enzyme Nnr
Alternative name(s):
Nicotinamide nucleotide repair protein
Including the following 2 domains:
ADP-dependent (S)-NAD(P)H-hydrate dehydratase (EC:4.2.1.136)
Alternative name(s):
ADP-dependent NAD(P)HX dehydratase
NAD(P)H-hydrate epimerase (EC:5.1.99.6)
Alternative name(s):
NAD(P)HX epimerase
<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:nnr
Ordered Locus Names:HP_1363
<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 lineageiBacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter ›
<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 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_00001190441 – 466Bifunctional NAD(P)H-hydrate repair enzyme NnrAdd BLAST466

Proteomic databases

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

More...PaxDbi		P56176

PRoteomics IDEntifications database

More...PRIDEi		P56176

<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		85962.C694_07035

<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

1466
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		P56176

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		P56176

<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>Domaini8 – 207YjeF N-terminalAdd BLAST200
Domaini215 – 466YjeF C-terminalAdd BLAST252

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 207NAD(P)H-hydrate epimeraseBy similarityAdd BLAST207
Regioni56 – 60NAD(P)HX (for epimerase activity)By similarity5
Regioni124 – 130NAD(P)HX (for epimerase activity)By similarity7
Regioni215 – 466ADP-dependent (S)-NAD(P)H-hydrate dehydrataseBy similarityAdd BLAST252
Regioni342 – 348NAD(P)HX (for dehydratase activity)By similarity7

<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

In the N-terminal section; belongs to the NnrE/AIBP family.Curated
In the C-terminal section; belongs to the NnrD/CARKD family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4105DR1 Bacteria
COG0062 LUCA
COG0063 LUCA

KEGG Orthology (KO)

More...KOi		K17758
K17759

Identification of Orthologs from Complete Genome Data

More...OMAi		KSPMCQL

Family and domain databases

Conserved Domains Database

More...CDDi		cd01171 YXKO-related, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.1190.20, 1 hit
3.40.50.10260, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_01965 NADHX_dehydratase, 1 hit
MF_01966 NADHX_epimerase, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR017953 Carbohydrate_kinase_pred_CS
IPR000631 CARKD
IPR030677 Nnr
IPR029056 Ribokinase-like
IPR004443 YjeF_N_dom
IPR036652 YjeF_N_dom_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF01256 Carb_kinase, 1 hit
PF03853 YjeF_N, 1 hit

PIRSF; a whole-protein classification database

More...PIRSFi		PIRSF017184 Nnr, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF53613 SSF53613, 1 hit
SSF64153 SSF64153, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00196 yjeF_cterm, 1 hit
TIGR00197 yjeF_nterm, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS01050 YJEF_C_2, 1 hit
PS51383 YJEF_C_3, 1 hit
PS51385 YJEF_N, 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.

P56176-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MLSVYEKVNA LDKRAIEELF LSEDILMENA AMALERAVLQ NASLGAKVII 
        60         70         80         90        100
LCGSGDNGGD GYALARRLVG RFKTLVFEMK LAKSPMCQLQ QERAKKAGVV 
       110        120        130        140        150
IKAYEENALN QNLECDVLID CVIGSHFKGK LEPFLNFESL SQKARFKIAC 
       160        170        180        190        200
DIPSGIDSKG RVDKGAFKAD LTISMGAIKS CLLSDRAKDY VGELKVGHLG 
       210        220        230        240        250
VFNQIYEIPT DTFLLEKSDL KLPLRDRKNA HKGDYGHAHV LLGKHSGAGL 
       260        270        280        290        300
LSALSALSFG SGVVSVQALE CEITSNNKPL ELVFCENFPN LLSAFALGMG 
       310        320        330        340        350
LENIPKDFNK WLELAPCVLD AGVFYHKEVL QALEKEVILT PHPKEFLSLL 
       360        370        380        390        400
KLVGINISML ELLDNKLEIA RDFSQKYPKV VLLLKGANTL IAHQGQVFIN 
       410        420        430        440        450
ILGSVALAKA GSGDVLAGLI LSLLSQNYTP LDAAINASSA HALASLEFKN 
       460 
NYALTPLDLI EKIKQL
Length:466
Mass (Da):50,737
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:i52125FE79BA8F056
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: AAD08403.1

Protein sequence database of the Protein Information Resource

More...PIRi		C64690

NCBI Reference Sequences

More...RefSeqi		NP_208155.1, NC_000915.1
WP_000954017.1, NC_018939.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAD08403; AAD08403; HP_1363

Database of genes from NCBI RefSeq genomes

More...GeneIDi		900323

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		heo:C694_07035
hpy:HP1363

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|85962.47.peg.1460

<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: AAD08403.1
PIRiC64690
RefSeqiNP_208155.1, NC_000915.1
WP_000954017.1, NC_018939.1

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
3K5WX-ray2.60A2-466[»]
SMRiP56176
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

STRINGi85962.C694_07035

Proteomic databases

PaxDbiP56176
PRIDEiP56176

Genome annotation databases

EnsemblBacteriaiAAD08403; AAD08403; HP_1363
GeneIDi900323
KEGGiheo:C694_07035
hpy:HP1363
PATRICifig|85962.47.peg.1460

Phylogenomic databases

eggNOGiENOG4105DR1 Bacteria
COG0062 LUCA
COG0063 LUCA
KOiK17758
K17759
OMAiKSPMCQL

Enzyme and pathway databases

BioCyciHPY:HP1363-MONOMER

Miscellaneous databases

EvolutionaryTraceiP56176

Family and domain databases

CDDicd01171 YXKO-related, 1 hit
Gene3Di3.40.1190.20, 1 hit
3.40.50.10260, 1 hit
HAMAPiMF_01965 NADHX_dehydratase, 1 hit
MF_01966 NADHX_epimerase, 1 hit
InterProiView protein in InterPro
IPR017953 Carbohydrate_kinase_pred_CS
IPR000631 CARKD
IPR030677 Nnr
IPR029056 Ribokinase-like
IPR004443 YjeF_N_dom
IPR036652 YjeF_N_dom_sf
PfamiView protein in Pfam
PF01256 Carb_kinase, 1 hit
PF03853 YjeF_N, 1 hit
PIRSFiPIRSF017184 Nnr, 1 hit
SUPFAMiSSF53613 SSF53613, 1 hit
SSF64153 SSF64153, 1 hit
TIGRFAMsiTIGR00196 yjeF_cterm, 1 hit
TIGR00197 yjeF_nterm, 1 hit
PROSITEiView protein in PROSITE
PS01050 YJEF_C_2, 1 hit
PS51383 YJEF_C_3, 1 hit
PS51385 YJEF_N, 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 nameiNNR_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: P56176
<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: December 11, 2019
This is version 113 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
  2. SIMILARITY comments
    Index of protein domains and families
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