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Entry version 86 (02 Jun 2021)
Sequence version 1 (25 Nov 2008)
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Protein

L-arabinonate dehydratase

Gene

araD

Organism
Rhizobium leguminosarum bv. trifolii (strain WSM2304)
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 dehydration of L-arabinonate to 2-dehydro-3-deoxy-L-arabinonate during L-arabinose degradation. Can also dehydrate D-galactonate and D-fuconate with good catalytic efficiency. Has weak activity with D-xylonate and D-gluconate.

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 '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

kcat is 728 min(-1) with L-arabinonate as substrate. kcat is 1377 min(-1) with D-galactonate as substrate. kcat is 2949 min(-1) with D-fuconate as substrate. kcat is 349 min(-1) with D-xylonate as substrate. kcat is 431 min(-1) with D-gluconate as substrate.1 Publication
  1. KM=1.8 mM for L-arabinonate1 Publication
  2. KM=3.8 mM for D-galactonate1 Publication
  3. KM=1.8 mM for D-fuconate1 Publication
  4. KM=9.2 mM for D-xylonate1 Publication
  5. KM=11.9 mM for D-gluconate1 Publication

    pH dependencei

    Optimum pH is 8.0.1 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: Carbohydrate metabolism

    This protein is involved in Carbohydrate metabolism.Curated
    View all proteins of this organism that are known to be involved in Carbohydrate 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 bindingi59Iron-sulfur (2Fe-2S)1 Publication1
    Metal bindingi91Magnesium1 Publication1
    Metal bindingi127Iron-sulfur (2Fe-2S)1 Publication1
    Metal bindingi128Magnesium1 Publication1
    Metal bindingi200Iron-sulfur (2Fe-2S)1 Publication1
    Metal bindingi453Magnesium1 Publication1

    <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 functionLyase
    Biological processArabinose catabolism, Carbohydrate metabolism
    Ligand2Fe-2S, Iron, Iron-sulfur, Magnesium, Metal-binding

    <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:
    L-arabinonate dehydrataseCurated (EC:4.2.1.251 Publication)
    Short name:
    ArDHT1 Publication
    Alternative name(s):
    D-fuconate dehydrataseCurated (EC:4.2.1.671 Publication)
    Galactonate dehydrataseCurated (EC:4.2.1.61 Publication)
    L-arabonate dehydratase1 Publication
    <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:araD1 Publication
    Ordered Locus Names:Rleg2_2909Imported
    <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>OrganismiRhizobium leguminosarum bv. trifolii (strain WSM2304)
    <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 identifieri395492 [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 lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupRhizobium
    <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
    • UP000008330 <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

    <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

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi59C → S: Loss of activity. Does not bind iron-sulfur cluster. 1 Publication1
    Mutagenesisi127C → S: Loss of activity. Does not bind iron-sulfur cluster. 1 Publication1
    Mutagenesisi200C → S: Almost loss of activity. Does not bind iron-sulfur cluster. 1 Publication1
    Mutagenesisi436C → S: No change in activity. Does not affect binding of iron-sulfur cluster. 1 Publication1
    Mutagenesisi443C → S: Slight decrease in activity. Does not affect binding of iron-sulfur cluster. 1 Publication1
    Mutagenesisi480S → A: Loss of activity. 1 Publication1

    <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_00004487991 – 579L-arabinonate dehydrataseAdd BLAST579

    <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

    Homotetramer.

    2 Publications

    Protein-protein interaction databases

    STRING: functional protein association networks

    More...
    STRINGi
    395492.Rleg2_2909

    <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

    1579
    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
    B5ZZ34

    Database of comparative protein structure models

    More...
    ModBasei
    Search...

    Protein Data Bank in Europe - Knowledge Base

    More...
    PDBe-KBi
    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

    Belongs to the IlvD/Edd family.Curated

    Phylogenomic databases

    evolutionary genealogy of genes: Non-supervised Orthologous Groups

    More...
    eggNOGi
    COG0129, Bacteria

    The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

    More...
    HOGENOMi
    CLU_014271_3_1_5

    Identification of Orthologs from Complete Genome Data

    More...
    OMAi
    SETFQKP

    Database of Orthologous Groups

    More...
    OrthoDBi
    193579at2

    Family and domain databases

    Gene3D Structural and Functional Annotation of Protein Families

    More...
    Gene3Di
    3.50.30.80, 1 hit

    Integrated resource of protein families, domains and functional sites

    More...
    InterProi
    View protein in InterPro
    IPR042096, Dihydro-acid_dehy_C
    IPR000581, DiOHA_6PGluconate_deHydtase
    IPR037237, IlvD/EDD_N

    Pfam protein domain database

    More...
    Pfami
    View protein in Pfam
    PF00920, ILVD_EDD, 1 hit

    Superfamily database of structural and functional annotation

    More...
    SUPFAMi
    SSF143975, SSF143975, 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.

    B5ZZ34-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MKKKAEWPRK LRSQEWYGGT SRDVIYHRGW LKNQGYPHDL FDGRPVIGIL
    60 70 80 90 100
    NTWSDMTPCN GHLRELAEKV KAGVWEAGGF PLEVPVFSAS ENTFRPTAMM
    110 120 130 140 150
    YRNLAALAVE EAIRGQPMDG CVLLVGCDKT TPSLLMGAAS CDLPSIVVTG
    160 170 180 190 200
    GPMLNGYFRG ERVGSGTHLW KFSEMVKAGE MTQAEFLEAE ASMSRSSGTC
    210 220 230 240 250
    NTMGTASTMA SMAEALGMAL SGNAAIPGVD SRRKVMAQLT GRRIVQMVKD
    260 270 280 290 300
    DLKPSEIMTK QAFENAIRTN AAIGGSTNAV IHLLAIAGRV GIDLSLDDWD
    310 320 330 340 350
    RCGRDVPTIV NLMPSGKYLM EEFFYAGGLP VVLKRLGEAG LLHKDALTVS
    360 370 380 390 400
    GETVWDEVKD VVNWNEDVIL PAEKALTSSG GIVVLRGNLA PKGAVLKPSA
    410 420 430 440 450
    ASPHLLVHKG RAVVFEDIDD YKAKINDDNL DIDENCIMVM KNCGPKGYPG
    460 470 480 490 500
    MAEVGNMGLP PKVLKKGILD MVRISDARMS GTAYGTVVLH TSPEAAVGGP
    510 520 530 540 550
    LAVVKNGDMI ELDVPNRRLH LDISDEELAR RLAEWQPNHD LPTSGYAFLH
    560 570
    QQHVEGADTG ADLDFLKGCR GNAVGKDSH
    Length:579
    Mass (Da):62,583
    Last modified:November 25, 2008 - 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:iA142C250B304F3C3
    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
    CP001191 Genomic DNA Translation: ACI56177.1

    NCBI Reference Sequences

    More...
    RefSeqi
    WP_003592857.1, NC_011369.1

    Genome annotation databases

    Ensembl bacterial and archaeal genome annotation project

    More...
    EnsemblBacteriai
    ACI56177; ACI56177; Rleg2_2909

    KEGG: Kyoto Encyclopedia of Genes and Genomes

    More...
    KEGGi
    rlt:Rleg2_2909

    <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
    CP001191 Genomic DNA Translation: ACI56177.1
    RefSeqiWP_003592857.1, NC_011369.1

    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
    5J83X-ray3.00A/B2-579[»]
    5J84X-ray2.40A/B/C/D/E/F/G/H2-579[»]
    5J85X-ray2.60A2-579[»]
    SMRiB5ZZ34
    ModBaseiSearch...
    PDBe-KBiSearch...

    Protein-protein interaction databases

    STRINGi395492.Rleg2_2909

    Genome annotation databases

    EnsemblBacteriaiACI56177; ACI56177; Rleg2_2909
    KEGGirlt:Rleg2_2909

    Phylogenomic databases

    eggNOGiCOG0129, Bacteria
    HOGENOMiCLU_014271_3_1_5
    OMAiSETFQKP
    OrthoDBi193579at2

    Family and domain databases

    Gene3Di3.50.30.80, 1 hit
    InterProiView protein in InterPro
    IPR042096, Dihydro-acid_dehy_C
    IPR000581, DiOHA_6PGluconate_deHydtase
    IPR037237, IlvD/EDD_N
    PfamiView protein in Pfam
    PF00920, ILVD_EDD, 1 hit
    SUPFAMiSSF143975, SSF143975, 1 hit

    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 nameiARAD_RHILW
    <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: B5ZZ34
    <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: December 11, 2019
    Last sequence update: November 25, 2008
    Last modified: June 2, 2021
    This is version 86 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

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families
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