From AureoWiki
Jump to navigation Jump to search

NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01252
  • pan locus tag?: SAUPAN003576000
  • symbol: SAOUHSC_01252
  • pan gene symbol?: rnjB
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01252
  • symbol: SAOUHSC_01252
  • product: hypothetical protein
  • replicon: chromosome
  • strand: +
  • coordinates: 1204525..1206096
  • length: 1572
  • essential: yes [1] DEG other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟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
    ATGTTTATGTTAGATGCTGGACTTATGTTTCCAGAAGACGAAATGCTAGGTATTGATATT
    GTTATACCAGACATTTCATACGTACTTGAAAATAAAGATAAATTGAAGGGTATATTCCTT
    ACACACGGACATGAGCACGCGATTGGTGCAGTGAGTTATGTTTTAGAACAATTAGATGCA
    CCAGTATATGGATCTAAATTGACAATAGCGTTAATTAAAGAAAATATGAAAGCCCGTAAT
    ATTGATAAAAAAGTTCGCTACTATACAGTTAATAATGATTCAATTATGAGATTCAAAAAC
    GTGAATATTAGTTTCTTTAATACGACACACAGTATTCCTGATAGTTTAGGTGTTTGTATT
    CACACTTCATATGGTGCCATTGTGTATACAGGTGAATTTAAGTTTGACCAAAGTTTACAT
    GGACATTATGCACCAGATATTAAACGTATGGCAGAGATTGGTGAAGAAGGCGTATTTGTC
    TTAATCAGTGATTCTACTGAGGCAGAGAAACCTGGATATAATACTCCGGAAAATGTGATT
    GAACATCATATGTATGATGCTTTTGCAAAAGTGCGAGGTCGCTTGATAGTTTCATGTTAT
    GCTTCGAACTTTATACGTATTCAGCAAGTTTTAAATATTGCTAGCAAGCTAAATCGTAAA
    GTGTCATTTTTAGGAAGATCACTTGAAAGTTCATTTAATATTGCTCGTAAAATGGGGTAT
    TTCGACATTCCTAAAGATTTGCTAATTCCTATAACAGAAGTTGATAATTATCCTAAAAAT
    GAAGTGATAATTATAGCTACTGGTATGCAAGGAGAACCTGTAGAAGCCTTAAGTCAAATG
    GCGCAACATAAGCATAAAATTATGAATATCGAAGAAGGCGATTCTGTATTTTTAGCAATT
    ACGGCTTCTGCTAATATGGAAGTTATCATTGCGAATACATTAAATGAGCTTGTACGTGCT
    GGCGCACATATTATTCCAAATAACAAAAAGATTCATGCTTCAAGTCATGGTTGCATGGAA
    GAATTAAAAATGATGATTAATATTATGAAACCTGAATACTTTATTCCTGTACAAGGTGAA
    TTTAAAATGCAGATAGCACATGCGAAGCTAGCAGCTGAAGCAGGTGTTGCACCAGAAAAG
    ATTTTCCTTGTGGAAAAAGGAGATGTCATTAATTACAACGGTAAAGATATGATATTAAAT
    GAAAAGGTAAATTCAGGAAATATTTTAATAGATGGCATTGGTATTGGGGATGTAGGAAAT
    ATCGTGTTGAGAGACCGTCATCTTTTAGCAGAAGATGGTATCTTTATTGCTGTTGTAACG
    TTAGATCCTAAAAATAGACGTATAGCTGCGGGACCTGAAATTCAATCTCGTGGGTTTGTA
    TATGTACGTGAAAGTGAAGACTTATTACGTGAAGCAGAAGAGAAAGTACGTGAAATAGTA
    GAGGCTGGTTTACAAGAAAAACGCATAGAATGGTCTGAAATTAAACAAAATATGCGTGAT
    CAAATTAGTAAACTATTATTCGAAAGTACAAAACGTCGTCCTATGATTATTCCAGTAATT
    TCTGAAATTTAA
    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
    1572

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01252
  • symbol: SAOUHSC_01252
  • description: hypothetical protein
  • length: 523
  • theoretical pI: 6.10426
  • theoretical MW: 58790.6
  • GRAVY: -0.0969407

⊟Function[edit | edit source]

  • reaction:
    EC 3.1.-.-?  ExPASy
  • TIGRFAM:
    Genetic information processing Transcription Degradation of RNA beta-CASP ribonuclease, RNase J family (TIGR00649; EC 3.1.-.-; HMM-score: 568.7)
    and 1 more
    Cellular processes Cellular processes Detoxification hydroxyacylglutathione hydrolase (TIGR03413; EC 3.1.2.6; HMM-score: 17)
  • TheSEED  :
    • Ribonuclease J2 (endoribonuclease in RNA processing)
    Bacterial RNA-metabolizing Zn-dependent hydrolases  Ribonuclease J2 (endoribonuclease in RNA processing)
  • PFAM:
    no clan defined RNase_J_b_CASP; Ribonuclease J, beta-CASP domain (PF22505; HMM-score: 118.5)
    RNase_J_C; Ribonuclease J C-terminal domain (PF17770; HMM-score: 111.9)
    and 6 more
    RMMBL_DRMBL (CL0398) RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain (PF07521; HMM-score: 48.6)
    Metallo-HOrase (CL0381) Lactamase_B_2; Beta-lactamase superfamily domain (PF12706; HMM-score: 24.9)
    Lactamase_B; Metallo-beta-lactamase superfamily (PF00753; HMM-score: 18.6)
    ATP_synthase (CL0255) vATP-synt_E; ATP synthase (E/31 kDa) subunit (PF01991; HMM-score: 15.3)
    HTH (CL0123) HTH_10; HTH DNA binding domain (PF04967; HMM-score: 13.7)
    no clan defined Imm49; Immunity protein 49 (PF15575; HMM-score: 10.9)

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

  • domains:
  • modifications:
  • cofactors: Zn2+
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.799
    • Cytoplasmic Membrane Score: 0.1222
    • Cell wall & surface Score: 0.0003
    • Extracellular Score: 0.0785
  • 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): 0.002336
    • TAT(Tat/SPI): 0.000132
    • LIPO(Sec/SPII): 0.000213
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MFMLDAGLMFPEDEMLGIDIVIPDISYVLENKDKLKGIFLTHGHEHAIGAVSYVLEQLDAPVYGSKLTIALIKENMKARNIDKKVRYYTVNNDSIMRFKNVNISFFNTTHSIPDSLGVCIHTSYGAIVYTGEFKFDQSLHGHYAPDIKRMAEIGEEGVFVLISDSTEAEKPGYNTPENVIEHHMYDAFAKVRGRLIVSCYASNFIRIQQVLNIASKLNRKVSFLGRSLESSFNIARKMGYFDIPKDLLIPITEVDNYPKNEVIIIATGMQGEPVEALSQMAQHKHKIMNIEEGDSVFLAITASANMEVIIANTLNELVRAGAHIIPNNKKIHASSHGCMEELKMMINIMKPEYFIPVQGEFKMQIAHAKLAAEAGVAPEKIFLVEKGDVINYNGKDMILNEKVNSGNILIDGIGIGDVGNIVLRDRHLLAEDGIFIAVVTLDPKNRRIAAGPEIQSRGFVYVRESEDLLREAEEKVREIVEAGLQEKRIEWSEIKQNMRDQISKLLFESTKRRPMIIPVISEI

⊟Experimental data[edit | edit source]

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟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]

⊟Other Information[edit | edit source]

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

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. ↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  4. ↑ 4.000 4.001 4.002 4.003 4.004 4.005 4.006 4.007 4.008 4.009 4.010 4.011 4.012 4.013 4.014 4.015 4.016 4.017 4.018 4.019 4.020 4.021 4.022 4.023 4.024 4.025 4.026 4.027 4.028 4.029 4.030 4.031 4.032 4.033 4.034 4.035 4.036 4.037 4.038 4.039 4.040 4.041 4.042 4.043 4.044 4.045 4.046 4.047 4.048 4.049 4.050 4.051 4.052 4.053 4.054 4.055 4.056 4.057 4.058 4.059 4.060 4.061 4.062 4.063 4.064 4.065 4.066 4.067 4.068 4.069 4.070 4.071 4.072 4.073 4.074 4.075 4.076 4.077 4.078 4.079 4.080 4.081 4.082 4.083 4.084 4.085 4.086 4.087 4.088 4.089 4.090 4.091 4.092 4.093 4.094 4.095 4.096 4.097 4.098 4.099 4.100 4.101 4.102 4.103 4.104 4.105 4.106 4.107 4.108 4.109 4.110 4.111 4.112 4.113 4.114 4.115 4.116 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)
  5. ↑ 5.0 5.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SAOUHSC_01252&oldid=69863"