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Entry version 47 (26 Feb 2020)
Sequence version 1 (05 Sep 2012)
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Protein

Assimilatory ferredoxin-dependent nitrite reductase

Gene

nasD

Organism
Haloferax mediterranei (strain ATCC 33500 / DSM 1411 / JCM 8866 / NBRC 14739 / NCIMB 2177 / R-4) (Halobacterium mediterranei)
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

Catalyzes the reduction of nitrite to ammonium in the nitrate assimilation pathway, using ferredoxin as the electron donor. Can use reduced methyl viologen but neither NADPH nor NADH as electron donors.1 Publication

Miscellaneous

Enzyme stability and activity depend upon the salt concentration.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

Protein has several cofactor binding sites:

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Inhibited by cyanide and azide.1 Publication

<p>This subsection of the 'Function' section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

In the presence of 3.2 M NaCl.
  1. KM=8.6 mM for nitrite1 Publication
  2. KM=1.9 mM for methyl viologen1 Publication
  1. Vmax=4.1 µmol/min/mg enzyme with nitrite as substrate1 Publication
  2. Vmax=1.7 µmol/min/mg enzyme with methyl viologen as substrate1 Publication

pH dependencei

Optimum pH is 7.5 at 60 degrees Celsius. At 40 degrees Celsius (temperature of the natural environment for H.mediterranei) the optimum pH is 6.5.1 Publication

Temperature dependencei

Optimum temperature is 60 degrees Celsius.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: nitrate reduction (assimilation)

This protein is involved in the pathway nitrate reduction (assimilation), which is part of Nitrogen metabolism.1 Publication
View all proteins of this organism that are known to be involved in the pathway nitrate reduction (assimilation) and in Nitrogen metabolism.

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 bindingi411Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi417Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi455Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi459Iron (siroheme axial ligand)By similarity1
Metal bindingi459Iron-sulfur (4Fe-4S)By similarity1

<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 functionOxidoreductase
Biological processElectron transport, Nitrate assimilation, Transport
Ligand4Fe-4S, Heme, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
HMED523841:G1HBL-2725-MONOMER

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00653

<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:
Assimilatory ferredoxin-dependent nitrite reductase1 Publication (EC:1.7.7.11 Publication)
Short name:
NiR1 Publication
Alternative name(s):
Ferredoxin:nitrite reductaseCurated
<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:nasD1 Publication
Synonyms:fdx-niRImported
Ordered Locus Names:HFX_2005
ORF Names:C439_11803
<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>OrganismiHaloferax mediterranei (strain ATCC 33500 / DSM 1411 / JCM 8866 / NBRC 14739 / NCIMB 2177 / R-4) (Halobacterium mediterranei)
<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 identifieri523841 [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 lineageiArchaeaEuryarchaeotaStenosarchaea groupHalobacteriaHaloferacalesHaloferacaceaeHaloferax
<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
  • UP000011603 <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: Unassembled WGS sequence
  • UP000006469 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_00004288911 – 586Assimilatory ferredoxin-dependent nitrite reductaseAdd BLAST586

<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

Repressed by the presence of ammonium as nitrogen source.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

<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

Monomer.

1 Publication

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
523841.HFX_2005

<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
I3R637

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

<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

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_015667_2_3_2

KEGG Orthology (KO)

More...
KOi
K00366

Identification of Orthologs from Complete Genome Data

More...
OMAi
GTDTCNL

Database of Orthologous Groups

More...
OrthoDBi
4523at2157

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR005117 NiRdtase/SiRdtase_haem-b_fer
IPR036136 Nit/Sulf_reduc_fer-like_dom_sf
IPR006067 NO2/SO3_Rdtase_4Fe4S_dom
IPR006066 NO2/SO3_Rdtase_FeS/sirohaem_BS

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01077 NIR_SIR, 2 hits
PF03460 NIR_SIR_ferr, 2 hits

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00397 SIROHAEM

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF55124 SSF55124, 2 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00365 NIR_SIR, 2 hits

<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.

I3R637-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MASKKEQWKS DLYGDAVRDE LEAFAEEGFE SIPEDERDKW FTRFKFWGVF
60 70 80 90 100
QQRTGQESYF MMRLTNANGV LEPGQLRTIA EVARDYATGP VDNPEFGNGW
110 120 130 140 150
VDLTTRQSIQ LHWLELEDIP EIWEQLESVG VTSRSAGGDT MRNITGCPVA
160 170 180 190 200
GKDTHELVES KPLLDRFQSE LREDDALSNM PRKFNISVTG CREGCAQDSI
210 220 230 240 250
NDIGLEPARK EVDGEVITGF NVRVGGGLGS RKPRVARSLD VFVADEERAY
260 270 280 290 300
EVVRGFVELY HDHGNRDVRA RARSRFFVDD WGTEKIRDRL ESEYLDFELQ
310 320 330 340 350
SAGEDIRDEY TYNAGRPQSA GKSDHVGVHE QSDGRYYVGL SVAVGRLTAA
360 370 380 390 400
DALELADLAD KYGSGKIRLT RRQNPIVMDV PAGALDDLLA EPLLSKHTPE
410 420 430 440 450
PNPFQRGTVA CTGTEFCSLA LTETKARTAR MLRWLRDNVE VPDDVHQLKI
460 470 480 490 500
HYSGCTADCG QANTADIGLF GMRAQKDGEM VEAMDIGVGG GIGDEPSFVE
510 520 530 540 550
WIHQRVPADE VPGAIASLVE AFAAHRTAGQ TFRQWVEAEG PDAVAEYCEP
560 570 580
IETDFEAPYM HDAKQSWYPF ADEDEPPKTE QPMTSD
Length:586
Mass (Da):65,438
Last modified:September 5, 2012 - 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:iDCA1E981EE4B5210
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti175D → N in CAF19045 (PubMed:16182473).Curated1
Sequence conflicti205 – 217LEPAR…DGEVI → WNPPGKRSTERLF in CAF19045 (PubMed:16182473).CuratedAdd BLAST13
Sequence conflicti366K → Q in CAF19045 (PubMed:16182473).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AJ621501 Genomic DNA Translation: CAF19045.1
CP001868 Genomic DNA Translation: AFK19697.1
AOLO01000009 Genomic DNA Translation: EMA00019.1

NCBI Reference Sequences

More...
RefSeqi
WP_004059343.1, NZ_CP039139.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AFK19697; AFK19697; HFX_2005
EMA00019; EMA00019; C439_11803

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
40155085

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
hme:HFX_2005

<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
AJ621501 Genomic DNA Translation: CAF19045.1
CP001868 Genomic DNA Translation: AFK19697.1
AOLO01000009 Genomic DNA Translation: EMA00019.1
RefSeqiWP_004059343.1, NZ_CP039139.1

3D structure databases

SMRiI3R637
ModBaseiSearch...

Protein-protein interaction databases

STRINGi523841.HFX_2005

Genome annotation databases

EnsemblBacteriaiAFK19697; AFK19697; HFX_2005
EMA00019; EMA00019; C439_11803
GeneIDi40155085
KEGGihme:HFX_2005

Phylogenomic databases

HOGENOMiCLU_015667_2_3_2
KOiK00366
OMAiGTDTCNL
OrthoDBi4523at2157

Enzyme and pathway databases

UniPathwayiUPA00653
BioCyciHMED523841:G1HBL-2725-MONOMER

Family and domain databases

InterProiView protein in InterPro
IPR005117 NiRdtase/SiRdtase_haem-b_fer
IPR036136 Nit/Sulf_reduc_fer-like_dom_sf
IPR006067 NO2/SO3_Rdtase_4Fe4S_dom
IPR006066 NO2/SO3_Rdtase_FeS/sirohaem_BS
PfamiView protein in Pfam
PF01077 NIR_SIR, 2 hits
PF03460 NIR_SIR_ferr, 2 hits
PRINTSiPR00397 SIROHAEM
SUPFAMiSSF55124 SSF55124, 2 hits
PROSITEiView protein in PROSITE
PS00365 NIR_SIR, 2 hits

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 nameiNASD_HALMT
<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: I3R637
Secondary accession number(s): Q703N2
<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: May 14, 2014
Last sequence update: September 5, 2012
Last modified: February 26, 2020
This is version 47 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families
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