From AureoWiki
Jump to navigation Jump to search

NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus USA300_FPR3757
  • locus tag: SAUSA300_0190 [new locus tag: SAUSA300_RS00995 ]
  • pan locus tag?: SAUPAN001030000
  • symbol: ipdC
  • pan gene symbol?: —
  • synonym:
  • product: indole-3-pyruvate decarboxylase

⊟Additional information (user-provided)[edit | edit source]

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAUSA300_0190 [new locus tag: SAUSA300_RS00995 ]
  • symbol: ipdC
  • product: indole-3-pyruvate decarboxylase
  • replicon: chromosome
  • strand: -
  • coordinates: 219419..221059
  • length: 1641
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

⊟Additional information (user-provided)[edit | edit source]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    ATGAAACAACGCATTGGAGCTTACTTAATTGACGCTATTCATCGAGCAGGCGTCGATAAA
    ATTTTTGGTGTTCCTGGTGATTTTAATCTCGCTTTTCTAGACGATATTATCAGCAATCCC
    AATGTAGATTGGGTAGGAAATACAAATGAATTAAACGCAAGTTACGCAGCGGACGGTTAT
    GCCCGTCTTAATGGACTCGCTGCATTAGTTACTACATTTGGTGTTGGCGAATTAAGTGCC
    GTCAACGGTATCGCAGGTTCATATGCTGAACGCATACCTGTCATTGCGATTACAGGTGCG
    CCGACACGTGCTGTTGAACAAGGCGGTAAATATGTACATCACTCACTTGGTGAAGGTACA
    TTTGACGACTATCGAAAAATGTTTGCACATATAACCGTTGCACAAGGTTATATCACACCT
    GAAAATGCAACAACCGAAATACCACGTTTAATTAATACAGCAATCGCCGAAAGACGCCCA
    GTTCATTTACATTTACCAATCGATGTCGCAATCTCTGAAATTGAGATACCGACACCATTT
    GAAGTGACGGCAACTAAATATACGGATGCATCAACATATATAGAGTTATTAGCAACTAAA
    CTGCATCAAGCGAAGCAGCCTATCATCATTACTGGACATGAAATTAACAGTTTTCACCTC
    CATCAAGAATTAGAAGATTTTGTAAATCAAACACAGATACCAGTAGCACAACTTTCATTA
    GGAAAAGGTGCTTTTAATGAGGAAAATCCATATTATATGGGTATTTACGATGGGAAAATT
    GCCGAAGATAAAATACGAGATTATGTGGACAACAGCGATTTAATTTTAAATATTGGAGCC
    AAATTAACAGATTCAGCAACAGCAGGTTTTTCATACCAATTCAATATCGATGATGTCGTT
    ATGTTAAATCATCACAATATCAAAATTGACGATGTTACAAATGATGAAATATCTCTACCA
    TCATTGTTAAAACAGTTATCCAATATTTCATATACGAATAACGCAACGTTCCCTGCGTAT
    CATCGTCCAACATCACCCGATTATACTGTTGGCACAGAACCATTAACACAACAAACTTAT
    TTTAAAATGATGCAAAATTTCTTAAAACCAAATGATGTCATCATTGCTGATCAAGGTACA
    TCATTCTTTGGTGCTTATGATTTAGCATTATACAAAAACAATACTTTTATAGGGCAACCG
    TTATGGGGTTCTATCGGCTATACATTACCTGCAACATTAGGTTCACAATTAGCAGACAAA
    GATCGTCGTAACTTATTATTAATTGGTGATGGCTCATTGCAACTAACTGTTCAAGCTATT
    TCAACTATGATTAGACAGCATATTAAACCGGTATTATTTGTGATTAATAATGACGGCTAT
    ACGGTAGAACGACTTATTCACGGCATGTATGAACCTTATAATGAAATTCACATGTGGGAT
    TATAAAGCTTTACCAGCTGTATTTGGTGGTAAAAATGTTGAAATTCATGACGTTGAATCA
    TCAAAAGATTTACAAGACACGTTTAATGCAATTAATGGTCATCCCGATGTGATGCATTTT
    GTCGAAGTCAAAATGGCTGTCGAAGACGCACCGAAGAAACTCATCGATATCGCTAAAGCT
    TTTTCACAACAAAATAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1641


⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAUSA300_0190 [new locus tag: SAUSA300_RS00995 ]
  • symbol: IpdC
  • description: indole-3-pyruvate decarboxylase
  • length: 546
  • theoretical pI: 5.0203
  • theoretical MW: 60538
  • GRAVY: -0.171429

⊟Function[edit | edit source]

  • reaction:
    EC 4.1.1.74?  ExPASy
    Indolepyruvate decarboxylase 3-(indol-3-yl)pyruvate = 2-(indol-3-yl)acetaldehyde + CO2
  • TIGRFAM:
    Metabolism Central intermediary metabolism Other indolepyruvate decarboxylase (TIGR03393; EC 4.1.1.74; HMM-score: 528.9)
    and 11 more
    indolepyruvate/phenylpyruvate decarboxylase (TIGR03394; EC 4.1.1.43,4.1.1.74; HMM-score: 197.2)
    Metabolism Amino acid biosynthesis Pyruvate family acetolactate synthase, large subunit, biosynthetic type (TIGR00118; EC 2.2.1.6; HMM-score: 159.9)
    Metabolism Central intermediary metabolism Other sulfoacetaldehyde acetyltransferase (TIGR03457; EC 2.3.3.15; HMM-score: 99.9)
    Metabolism Energy metabolism Sugars 3,5/4-trihydroxycyclohexa-1,2-dione hydrolase (TIGR04377; EC 3.7.1.-; HMM-score: 88.8)
    glyoxylate carboligase (TIGR01504; EC 4.1.1.47; HMM-score: 78.8)
    Metabolism Energy metabolism Fermentation acetolactate synthase, catabolic (TIGR02418; EC 2.2.1.6; HMM-score: 77.1)
    Metabolism Energy metabolism Aerobic pyruvate oxidase (TIGR02720; EC 1.2.3.3; HMM-score: 63.3)
    Cellular processes Cellular processes Detoxification oxalyl-CoA decarboxylase (TIGR03254; EC 4.1.1.8; HMM-score: 49.2)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase (TIGR00173; EC 2.2.1.9; HMM-score: 41.9)
    sulfopyruvate decarboxylase, beta subunit (TIGR03846; EC 4.1.1.79; HMM-score: 18.8)
    Metabolism Energy metabolism Chemoautotrophy CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit (TIGR00315; EC 1.2.99.2; HMM-score: 13.9)
  • TheSEED  :
    • Alpha-keto-acid decarboxylase (EC 4.1.1.-)
    • Pyruvate decarboxylase (EC 4.1.1.1)
    Carbohydrates Central carbohydrate metabolism Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate  Pyruvate decarboxylase (EC 4.1.1.1)
  • PFAM:
    THDP-binding (CL0254) TPP_enzyme_N; Thiamine pyrophosphate enzyme, N-terminal TPP binding domain (PF02776; HMM-score: 96.3)
    NADP_Rossmann (CL0063) TPP_enzyme_M; Thiamine pyrophosphate enzyme, central domain (PF00205; HMM-score: 79.8)
    and 2 more
    THDP-binding (CL0254) TPP_enzyme_C; Thiamine pyrophosphate enzyme, C-terminal TPP binding domain (PF02775; HMM-score: 64.4)
    NADP_Rossmann (CL0063) CO_dh; CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit (PF02552; HMM-score: 13.9)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.67
    • Cytoplasmic Membrane Score: 0.01
    • Cellwall Score: 0.15
    • Extracellular Score: 0.17
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9558
    • Cytoplasmic Membrane Score: 0.0245
    • Cell wall & surface Score: 0.001
    • Extracellular Score: 0.0186
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.010937
    • TAT(Tat/SPI): 0.000972
    • LIPO(Sec/SPII): 0.001253
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Additional information (user-provided)[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKQRIGAYLIDAIHRAGVDKIFGVPGDFNLAFLDDIISNPNVDWVGNTNELNASYAADGYARLNGLAALVTTFGVGELSAVNGIAGSYAERIPVIAITGAPTRAVEQGGKYVHHSLGEGTFDDYRKMFAHITVAQGYITPENATTEIPRLINTAIAERRPVHLHLPIDVAISEIEIPTPFEVTATKYTDASTYIELLATKLHQAKQPIIITGHEINSFHLHQELEDFVNQTQIPVAQLSLGKGAFNEENPYYMGIYDGKIAEDKIRDYVDNSDLILNIGAKLTDSATAGFSYQFNIDDVVMLNHHNIKIDDVTNDEISLPSLLKQLSNISYTNNATFPAYHRPTSPDYTVGTEPLTQQTYFKMMQNFLKPNDVIIADQGTSFFGAYDLALYKNNTFIGQPLWGSIGYTLPATLGSQLADKDRRNLLLIGDGSLQLTVQAISTMIRQHIKPVLFVINNDGYTVERLIHGMYEPYNEIHMWDYKALPAVFGGKNVEIHDVESSKDLQDTFNAINGHPDVMHFVEVKMAVEDAPKKLIDIAKAFSQQNK

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:
    SAUSA300_0380(ahpC)alkyl hydroperoxide reductase subunit C  [1] (data from MRSA252)
    SAUSA300_2569(arcB)ornithine carbamoyltransferase  [1] (data from MRSA252)
    SAUSA300_1678(fhs)formate--tetrahydrofolate ligase  [1] (data from MRSA252)
    SAUSA300_1640(icd)isocitrate dehydrogenase  [1] (data from MRSA252)
    SAUSA300_0993(pdhA)pyruvate dehydrogenase E1 component, alpha subunit  [1] (data from MRSA252)
    SAUSA300_0220(pflB)formate acetyltransferase  [1] (data from MRSA252)
    SAUSA300_1644(pyk)pyruvate kinase  [1] (data from MRSA252)
    SAUSA300_2202(rplW)50S ribosomal protein L23  [1] (data from MRSA252)
    SAUSA300_1149(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    SAUSA300_2187(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SAUSA300_2171(rpsI)30S ribosomal protein S9  [1] (data from MRSA252)
    SAUSA300_1622(tig)trigger factor  [1] (data from MRSA252)
    SAUSA300_0844hypothetical protein  [1] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: CcpA regulon
    CcpA(TF)important in Carbon catabolism; RegPrecise 

⊟Additional information (user-provided)[edit | edit source]

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Additional information (user-provided)[edit | edit source]

⊟Other information (user-provided)[edit | edit source]

You can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SAUSA300_0190&oldid=141386"