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Protein

Acetylornithine/succinyldiaminopimelate aminotransferase

Gene

argD

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in both the arginine and lysine biosynthetic pathways.By similarity

Catalytic activityi

N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L-glutamate 5-semialdehyde + L-glutamate.
N-succinyl-L-2,6-diaminoheptanedioate + 2-oxoglutarate = N-succinyl-2-L-amino-6-oxoheptanedioate + L-glutamate.

Cofactori

pyridoxal 5'-phosphate1 PublicationNote: Binds 1 pyridoxal phosphate per subunit.1 Publication

Enzyme regulationi

Inhibited by gabaculine (Gcn).1 Publication

Kineticsi

  1. KM=37 µM for N-acetylornithine (at pH 9.5 and 25 degrees Celsius)1 Publication
  2. KM=640 µM for ornithine (at pH 9.5 and 25 degrees Celsius)1 Publication

    pH dependencei

    Optimum pH is 9.5. At pH 8.0, the activity is reduced by 50%.1 Publication

    Pathwayi: L-arginine biosynthesis

    This protein is involved in step 4 of the subpathway that synthesizes N(2)-acetyl-L-ornithine from L-glutamate.
    Proteins known to be involved in the 4 steps of the subpathway in this organism are:
    1. Amino-acid acetyltransferase (argA)
    2. Acetylglutamate kinase (argB)
    3. N-acetyl-gamma-glutamyl-phosphate reductase (argC)
    4. Acetylornithine/succinyldiaminopimelate aminotransferase (argD)
    This subpathway is part of the pathway L-arginine biosynthesis, which is itself part of Amino-acid biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes N(2)-acetyl-L-ornithine from L-glutamate, the pathway L-arginine biosynthesis and in Amino-acid biosynthesis.

    Pathwayi: L-lysine biosynthesis via DAP pathway

    This protein is involved in step 2 of the subpathway that synthesizes LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route).
    Proteins known to be involved in the 3 steps of the subpathway in this organism are:
    1. 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (dapD)
    2. Acetylornithine/succinyldiaminopimelate aminotransferase (argD)
    3. Succinyl-diaminopimelate desuccinylase (dapE)
    This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route), the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei141 – 1411Pyridoxal phosphate; via carbonyl oxygen
    Binding sitei144 – 1441N2-acetyl-L-ornithineBy similarity
    Binding sitei283 – 2831N2-acetyl-L-ornithineBy similarity
    Binding sitei284 – 2841Pyridoxal phosphateBy similarity

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Aminotransferase, Transferase

    Keywords - Biological processi

    Amino-acid biosynthesis, Arginine biosynthesis, Lysine biosynthesis

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    BioCyciSENT99287:GCTI-3490-MONOMER.
    SABIO-RKP40732.
    UniPathwayiUPA00034; UER00020.
    UPA00068; UER00109.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Acetylornithine/succinyldiaminopimelate aminotransferase (EC:2.6.1.11, EC:2.6.1.17)
    Short name:
    ACOAT
    Short name:
    DapATase
    Short name:
    Succinyldiaminopimelate transferase
    Gene namesi
    Name:argD
    Synonyms:dapC, dtu
    Ordered Locus Names:STM3468
    OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
    Taxonomic identifieri99287 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
    Proteomesi
    • UP000001014 Componenti: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methionineiRemovedBy similarity
    Chaini2 – 405404Acetylornithine/succinyldiaminopimelate aminotransferasePRO_0000112777Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei255 – 2551N6-(pyridoxal phosphate)lysine

    Proteomic databases

    PaxDbiP40732.
    PRIDEiP40732.

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    GO - Molecular functioni

    Protein-protein interaction databases

    STRINGi99287.STM3468.

    Structurei

    Secondary structure

    1
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi13 – 164Combined sources
    Beta strandi28 – 336Combined sources
    Beta strandi35 – 384Combined sources
    Beta strandi43 – 486Combined sources
    Helixi49 – 524Combined sources
    Helixi61 – 7111Combined sources
    Helixi84 – 9613Combined sources
    Beta strandi100 – 1078Combined sources
    Helixi108 – 12619Combined sources
    Beta strandi133 – 1375Combined sources
    Helixi146 – 1516Combined sources
    Helixi155 – 1584Combined sources
    Beta strandi161 – 1633Combined sources
    Beta strandi168 – 1714Combined sources
    Helixi176 – 1827Combined sources
    Beta strandi187 – 1926Combined sources
    Beta strandi194 – 1963Combined sources
    Turni197 – 2004Combined sources
    Beta strandi201 – 2033Combined sources
    Helixi206 – 21914Combined sources
    Beta strandi222 – 2265Combined sources
    Turni228 – 2358Combined sources
    Beta strandi236 – 2394Combined sources
    Helixi240 – 2445Combined sources
    Beta strandi249 – 2535Combined sources
    Helixi255 – 2584Combined sources
    Beta strandi264 – 2685Combined sources
    Helixi270 – 2734Combined sources
    Beta strandi284 – 2863Combined sources
    Helixi289 – 30214Combined sources
    Helixi305 – 32925Combined sources
    Beta strandi332 – 3387Combined sources
    Beta strandi341 – 3466Combined sources
    Helixi348 – 3503Combined sources
    Helixi354 – 36310Combined sources
    Beta strandi369 – 3724Combined sources
    Beta strandi375 – 3784Combined sources
    Helixi386 – 40520Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2PB0X-ray1.96A/B1-405[»]
    2PB2X-ray1.91A/B1-405[»]
    4JEVX-ray1.67A/B1-405[»]
    4JEWX-ray1.48A/B1-405[»]
    4JEXX-ray1.43A/B1-405[»]
    4JEYX-ray1.55A/B1-405[»]
    4JEZX-ray1.55A/B1-405[»]
    4JF0X-ray2.10A/B1-405[»]
    4JF1X-ray1.28A/B1-405[»]
    ProteinModelPortaliP40732.
    SMRiP40732. Positions 18-404.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP40732.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni108 – 1092Pyridoxal phosphate binding
    Regioni226 – 2294Pyridoxal phosphate binding

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiENOG4105C8Y. Bacteria.
    COG4992. LUCA.
    HOGENOMiHOG000020206.
    KOiK00821.
    OMAiGHLFAYM.
    OrthoDBiEOG6QVRHN.
    PhylomeDBiP40732.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    3.90.1150.10. 2 hits.
    HAMAPiMF_01107. ArgD_aminotrans_3.
    InterProiIPR017652. Ac/SucOrn_transaminase_bac.
    IPR004636. AcOrn/SuccOrn_fam.
    IPR005814. Aminotrans_3.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    [Graphical view]
    PANTHERiPTHR11986. PTHR11986. 1 hit.
    PfamiPF00202. Aminotran_3. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.
    TIGRFAMsiTIGR03246. arg_catab_astC. 1 hit.
    TIGR00707. argD. 1 hit.
    PROSITEiPS00600. AA_TRANSFER_CLASS_3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P40732-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MATEQTAITR ATFDEVILPV YAPADFIPVK GKGSRVWDQQ GKEYIDFAGG
    60 70 80 90 100
    IAVTALGHCH PALVEALKSQ GETLWHTSNV FTNEPALRLG RKLIDATFAE
    110 120 130 140 150
    RVLFMNSGTE ANETAFKLAR HYACVRHSPF KTKIIAFHNA FHGRSLFTVS
    160 170 180 190 200
    VGGQPKYSDG FGPKPADIIH VPFNDLHAVK AVMDDHTCAV VVEPIQGEGG
    210 220 230 240 250
    VQAATPEFLK GLRDLCDEHQ ALLVFDEVQC GMGRTGDLFA YMHYGVTPDI
    260 270 280 290 300
    LTSAKALGGG FPVSAMLTTQ EIASAFHVGS HGSTYGGNPL ACAVAGAAFD
    310 320 330 340 350
    IINTPEVLQG IHTKRQQFVQ HLQAIDEQFD IFSDIRGMGL LIGAELKPKY
    360 370 380 390 400
    KGRARDFLYA GAEAGVMVLN AGADVMRFAP SLVVEEADIH EGMQRFAQAV

    GKVVA
    Length:405
    Mass (Da):43,670
    Last modified:January 23, 2007 - v3
    Checksum:i26A69C62831E986C
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti3 – 31T → I in AAA24265 (PubMed:2403545).Curated
    Sequence conflicti3 – 31T → I in AAA27178 (PubMed:2403545).Curated

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AE006468 Genomic DNA. Translation: AAL22330.1.
    M32354 Genomic DNA. Translation: AAA24265.1.
    M32355 Genomic DNA. Translation: AAA27178.1.
    RefSeqiNP_462371.1. NC_003197.1.
    WP_000190023.1. NC_003197.1.

    Genome annotation databases

    EnsemblBacteriaiAAL22330; AAL22330; STM3468.
    GeneIDi1254991.
    KEGGistm:STM3468.
    PATRICi32385735. VBISalEnt20916_3665.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AE006468 Genomic DNA. Translation: AAL22330.1.
    M32354 Genomic DNA. Translation: AAA24265.1.
    M32355 Genomic DNA. Translation: AAA27178.1.
    RefSeqiNP_462371.1. NC_003197.1.
    WP_000190023.1. NC_003197.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2PB0X-ray1.96A/B1-405[»]
    2PB2X-ray1.91A/B1-405[»]
    4JEVX-ray1.67A/B1-405[»]
    4JEWX-ray1.48A/B1-405[»]
    4JEXX-ray1.43A/B1-405[»]
    4JEYX-ray1.55A/B1-405[»]
    4JEZX-ray1.55A/B1-405[»]
    4JF0X-ray2.10A/B1-405[»]
    4JF1X-ray1.28A/B1-405[»]
    ProteinModelPortaliP40732.
    SMRiP40732. Positions 18-404.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi99287.STM3468.

    Proteomic databases

    PaxDbiP40732.
    PRIDEiP40732.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAL22330; AAL22330; STM3468.
    GeneIDi1254991.
    KEGGistm:STM3468.
    PATRICi32385735. VBISalEnt20916_3665.

    Phylogenomic databases

    eggNOGiENOG4105C8Y. Bacteria.
    COG4992. LUCA.
    HOGENOMiHOG000020206.
    KOiK00821.
    OMAiGHLFAYM.
    OrthoDBiEOG6QVRHN.
    PhylomeDBiP40732.

    Enzyme and pathway databases

    UniPathwayiUPA00034; UER00020.
    UPA00068; UER00109.
    BioCyciSENT99287:GCTI-3490-MONOMER.
    SABIO-RKP40732.

    Miscellaneous databases

    EvolutionaryTraceiP40732.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    3.90.1150.10. 2 hits.
    HAMAPiMF_01107. ArgD_aminotrans_3.
    InterProiIPR017652. Ac/SucOrn_transaminase_bac.
    IPR004636. AcOrn/SuccOrn_fam.
    IPR005814. Aminotrans_3.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    [Graphical view]
    PANTHERiPTHR11986. PTHR11986. 1 hit.
    PfamiPF00202. Aminotran_3. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.
    TIGRFAMsiTIGR03246. arg_catab_astC. 1 hit.
    TIGR00707. argD. 1 hit.
    PROSITEiPS00600. AA_TRANSFER_CLASS_3. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Publicationsi

    « Hide 'large scale' publications
    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: LT2 / SGSC1412 / ATCC 700720.
    2. "Chromosomal organization and expression of Escherichia coli pabA."
      Tran P.V., Bannor T.A., Doktor S.Z., Nichols B.P.
      J. Bacteriol. 172:397-410(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-17.
    3. "Structure of biosynthetic N-acetylornithine aminotransferase from Salmonella typhimurium: studies on substrate specificity and inhibitor binding."
      Rajaram V., Ratna Prasuna P., Savithri H.S., Murthy M.R.
      Proteins 70:429-441(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.96 ANGSTROMS) IN COMPLEXES WITH PLP, COFACTOR, SUBUNIT, ENZYME REGULATION, BIOPHYSICOCHEMICAL PROPERTIES.

    Entry informationi

    Entry nameiARGD_SALTY
    AccessioniPrimary (citable) accession number: P40732
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: January 23, 2007
    Last modified: February 17, 2016
    This is version 130 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    The reaction catalyzed by ACOAT is highly reversible. This enzyme may also transaminate ornithine.

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    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

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.