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PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 03-AUG-2016

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⊟Summary[edit | edit source]

Contents

  • 1 Summary
  • 2 Genome View
  • 3 Gene
    • 3.1 General
    • 3.2 Accession numbers
    • 3.3 Phenotype
    • 3.4 DNA sequence
  • 4 Protein
    • 4.1 General
    • 4.2 Function
    • 4.3 Structure, modifications & cofactors
    • 4.4 Localization
    • 4.5 Accession numbers
    • 4.6 Protein sequence
    • 4.7 Experimental data
  • 5 Expression & Regulation
    • 5.1 Operon
    • 5.2 Regulation
    • 5.3 Transcription pattern
    • 5.4 Protein synthesis (provided by Aureolib)
    • 5.5 Protein stability
  • 6 Biological Material
    • 6.1 Mutants
    • 6.2 Expression vector
    • 6.3 lacZ fusion
    • 6.4 GFP fusion
    • 6.5 two-hybrid system
    • 6.6 FLAG-tag construct
    • 6.7 Antibody
  • 7 Other Information
  • 8 Literature
    • 8.1 References
    • 8.2 Relevant publications
  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01035
  • pan locus tag?: SAUPAN003312000
  • symbol: SAOUHSC_01035
  • pan gene symbol?: rnjA
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01035
  • symbol: SAOUHSC_01035
  • product: hypothetical protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1004298..1005995
  • length: 1698
  • essential: yes [1] DEG other strains

⊟Accession numbers[edit | edit source]

  • Gene ID: 3919883 NCBI
  • RefSeq: YP_499584 NCBI
  • BioCyc: G1I0R-974 BioCyc
  • MicrobesOnline: 1289497 MicrobesOnline

⊟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
    1621
    1681
    ATGAAACAATTACATCCAAATGAAGTAGGTGTATATGCACTTGGAGGTCTAGGTGAAATC
    GGTAAAAATACTTATGCAGTTGAGTATAAAGACGAAATTGTCATTATCGATGCAGGTATC
    AAATTCCCTGATGATAACTTATTAGGGATTGATTATGTTATACCTGACTACACATATCTA
    GTTCAAAACCAAGATAAAATTGTTGGCCTATTTATAACACATGGTCACGAAGACCATATA
    GGCGGTGTGCCCTTCCTATTAAAACAACTTAATATACCTATTTATGGTGGTCCTTTAGCA
    TTAGGTTTAATCCGTAATAAACTTGAAGAACATCATTTATTACGTACTGCTAAACTAAAT
    GAAATCAATGAGGACAGTGTGATTAAATCTAAGCACTTTACGATTTCTTTCTACTTAACT
    ACACATAGTATTCCTGAAACTTATGGCGTCATCGTAGATACACCTGAAGGAAAAGTAGTT
    CATACCGGTGACTTTAAATTTGATTTTACACCTGTAGGCAAACCAGCAAACATTGCTAAA
    ATGGCTCAATTAGGCGAAGAAGGCGTTCTATGTTTACTTTCAGACTCAACAAATTCACTT
    GTGCCTGATTTTACTTTAAGCGAACGTGAAGTTGGTCAAAACGTAGATAAGATCTTCCGT
    AATTGTAAAGGTCGTATTATATTTGCTACCTTCGCTTCTAATATTTACCGAGTTCAACAA
    GCAGTTGAAGCTGCTATCAAAAATAACCGTAAAATTGTTACGTTCGGTCGTTCGATGGAA
    AACAATATTAAAATAGGTATGGAACTTGGTTATATTAAAGCACCACCTGAAACATTTATT
    GAACCTAATAAAATTAATACCGTACCGAAGCATGAGTTATTGATACTATGTACTGGTTCA
    CAAGGTGAACCAATGGCAGCATTATCTAGAATTGCTAATGGTACTCATAAGCAAATTAAA
    ATTATACCTGAAGATACCGTTGTATTTAGTTCATCACCTATCCCAGGTAATACAAAAAGT
    ATTAACAGAACTATTAATTCCTTGTATAAAGCTGGTGCAGATGTTATCCATAGCAAGATT
    TCTAACATCCATACTTCAGGGCATGGTTCTCAAGGTGATCAACAATTAATGCTTCGATTA
    ATCAAGCCGAAATATTTCTTACCTATTCATGGTGAATACCGTATGTTAAAAGCACATGGT
    GAGACTGGTGTTGAATGCGGCGTTGAAGAAGATAATGTCTTCATCTTTGATATTGGAGAT
    GTCTTAGCTTTAACACACGATTCAGCACGTAAAGCTGGTCGCATTCCATCTGGTAATGTA
    CTTGTTGATGGTAGTGGTATCGGTGATATCGGTAATGTTGTAATAAGAGACCGTAAGCTA
    TTATCTGAAGAAGGTTTAGTTATCGTTGTTGTTAGTATTGATTTTAATACAAATAAATTA
    CTTTCTGGTCCAGACATTATTTCTCGAGGATTTGTATATATGAGGGAATCAGGTCAATTA
    ATTTATGATGCACAACGCAAAATCAAAACTGATGTTATTAGTAAGTTAAATCAAAATAAA
    GATATTCAATGGCATCAGATTAAATCTTCTATCATTGAAACATTACAACCTTATTTATTT
    GAAAAAACAGCTAGAAAACCAATGATTTTACCAGTCATTATGAAGGTAAACGAACAAAAA
    GAATCAAACAATAAATAA
    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
    1680
    1698

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01035
  • symbol: SAOUHSC_01035
  • description: hypothetical protein
  • length: 565
  • theoretical pI: 7.3306
  • theoretical MW: 62668.7
  • GRAVY: -0.169735

⊟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: 688.9)
    and 4 more
    arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein (TIGR03675; HMM-score: 33.3)
    Genetic information processing Transcription RNA processing ribonuclease Z (TIGR02651; EC 3.1.26.11; HMM-score: 25.1)
    Cellular processes Cellular processes Detoxification hydroxyacylglutathione hydrolase (TIGR03413; EC 3.1.2.6; HMM-score: 24)
    Cellular processes Cellular processes DNA transformation DNA internalization-related competence protein ComEC/Rec2 (TIGR00361; HMM-score: 12.4)
  • TheSEED  :
    • Ribonuclease J2 (endoribonuclease in RNA processing)
    Bacterial RNA-metabolizing Zn-dependent hydrolases  Ribonuclease J1 (endonuclease and 5' exonuclease)
  • ⊞PFAM:
    no clan defined RNase_J_b_CASP; Ribonuclease J, beta-CASP domain (PF22505; HMM-score: 189.6)
    and 5 more
    RNase_J_C; Ribonuclease J C-terminal domain (PF17770; HMM-score: 113.5)
    Metallo-HOrase (CL0381) Lactamase_B; Metallo-beta-lactamase superfamily (PF00753; HMM-score: 61)
    RMMBL_DRMBL (CL0398) RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain (PF07521; HMM-score: 39.4)
    Metallo-HOrase (CL0381) Lactamase_B_2; Beta-lactamase superfamily domain (PF12706; HMM-score: 38.6)
    RNase_H (CL0219) DUF4152; Protein of unknown function (DUF4152) (PF13680; HMM-score: 13)

⊟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: 0.8939
    • Cytoplasmic Membrane Score: 0.0419
    • Cell wall & surface Score: 0.0004
    • Extracellular Score: 0.0638
  • ⊞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): 0.017007
    • TAT(Tat/SPI): 0.000282
    • LIPO(Sec/SPII): 0.002342
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI: 88194787 NCBI
  • RefSeq: YP_499584 NCBI
  • UniProt: Q2FZG9 UniProt
  • STRING: 93061.SAOUHSC_01035 STRING

⊟Protein sequence[edit | edit source]

  • MKQLHPNEVGVYALGGLGEIGKNTYAVEYKDEIVIIDAGIKFPDDNLLGIDYVIPDYTYLVQNQDKIVGLFITHGHEDHIGGVPFLLKQLNIPIYGGPLALGLIRNKLEEHHLLRTAKLNEINEDSVIKSKHFTISFYLTTHSIPETYGVIVDTPEGKVVHTGDFKFDFTPVGKPANIAKMAQLGEEGVLCLLSDSTNSLVPDFTLSEREVGQNVDKIFRNCKGRIIFATFASNIYRVQQAVEAAIKNNRKIVTFGRSMENNIKIGMELGYIKAPPETFIEPNKINTVPKHELLILCTGSQGEPMAALSRIANGTHKQIKIIPEDTVVFSSSPIPGNTKSINRTINSLYKAGADVIHSKISNIHTSGHGSQGDQQLMLRLIKPKYFLPIHGEYRMLKAHGETGVECGVEEDNVFIFDIGDVLALTHDSARKAGRIPSGNVLVDGSGIGDIGNVVIRDRKLLSEEGLVIVVVSIDFNTNKLLSGPDIISRGFVYMRESGQLIYDAQRKIKTDVISKLNQNKDIQWHQIKSSIIETLQPYLFEKTARKPMILPVIMKVNEQKESNNK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • ⊟interaction partners:
    SAOUHSC_01786(infC)translation initiation factor IF-3  [4] (data from MRSA252)
    SAOUHSC_00519(rplA)50S ribosomal protein L1  [4] (data from MRSA252)
    SAOUHSC_02509(rplB)50S ribosomal protein L2  [4] (data from MRSA252)
    SAOUHSC_02512(rplC)50S ribosomal protein L3  [4] (data from MRSA252)
    SAOUHSC_02511(rplD)50S ribosomal protein L4  [4] (data from MRSA252)
    SAOUHSC_02500(rplE)50S ribosomal protein L5  [4] (data from MRSA252)
    SAOUHSC_02496(rplF)50S ribosomal protein L6  [4] (data from MRSA252)
    SAOUHSC_00520(rplJ)50S ribosomal protein L10  [4] (data from MRSA252)
    SAOUHSC_00521(rplL)50S ribosomal protein L7/L12  [4] (data from MRSA252)
    SAOUHSC_02492(rplO)50S ribosomal protein L15  [4] (data from MRSA252)
    SAOUHSC_02505(rplP)50S ribosomal protein L16  [4] (data from MRSA252)
    SAOUHSC_01211(rplS)50S ribosomal protein L19  [4] (data from MRSA252)
    SAOUHSC_01784(rplT)50S ribosomal protein L20  [4] (data from MRSA252)
    SAOUHSC_01757(rplU)50S ribosomal protein L21  [4] (data from MRSA252)
    SAOUHSC_02507(rplV)50S ribosomal protein L22  [4] (data from MRSA252)
    SAOUHSC_02510(rplW)50S ribosomal protein L23  [4] (data from MRSA252)
    SAOUHSC_01232(rpsB)30S ribosomal protein S2  [4] (data from MRSA252)
    SAOUHSC_02506(rpsC)30S ribosomal protein S3  [4] (data from MRSA252)
    SAOUHSC_01829(rpsD)30S ribosomal protein S4  [4] (data from MRSA252)
    SAOUHSC_02494(rpsE)30S ribosomal protein S5  [4] (data from MRSA252)
    SAOUHSC_02477(rpsI)30S ribosomal protein S9  [4] (data from MRSA252)
    SAOUHSC_01250(rpsO)30S ribosomal protein S15  [4] (data from MRSA252)
    SAOUHSC_02503(rpsQ)30S ribosomal protein S17  [4] (data from MRSA252)
    SAOUHSC_02508(rpsS)30S ribosomal protein S19  [4] (data from MRSA252)
    SAOUHSC_00187formate acetyltransferase  [4] (data from MRSA252)
    SAOUHSC_002845'-nucleotidase  [4] (data from MRSA252)
    SAOUHSC_0052830S ribosomal protein S7  [4] (data from MRSA252)
    SAOUHSC_00529elongation factor G  [4] (data from MRSA252)
    SAOUHSC_00530elongation factor Tu  [4] (data from MRSA252)
    SAOUHSC_00679hypothetical protein  [4] (data from MRSA252)
    SAOUHSC_00847ABC transporter ATP-binding protein  [4] (data from MRSA252)
    SAOUHSC_00878hypothetical protein  [4] (data from MRSA252)
    SAOUHSC_01043dihydrolipoamide dehydrogenase  [4] (data from MRSA252)
    SAOUHSC_01416dihydrolipoamide succinyltransferase  [4] (data from MRSA252)
    SAOUHSC_01490DNA-binding protein HU  [4] (data from MRSA252)
    SAOUHSC_01814hypothetical protein  [4] (data from MRSA252)
    SAOUHSC_01819hypothetical protein  [4] (data from MRSA252)
    SAOUHSC_02316DEAD-box ATP dependent DNA helicase  [4] (data from MRSA252)
    SAOUHSC_0248630S ribosomal protein S11  [4] (data from MRSA252)
    SAOUHSC_02969arginine deiminase  [4] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

  • MicrobesOnline: SAOUHSC_01035 < SAOUHSC_01036
    predicted SigA promoter [5] : SAOUHSC_01035 < SAOUHSC_01036 < SAOUHSC_01037

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

  • S.aureus Expression Data Browser:  [5] 
    Expression Data Browser
    ⊟Multi-gene expression profiles



    Click on any data point to display a description of the corresponding condition!

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

  • Aureolib: no data available

⊟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 are kindly invited to share additional interesting facts.

⊟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. ↑ Jump up to: 4.00 4.01 4.02 4.03 4.04 4.05 4.06 4.07 4.08 4.09 4.10 4.11 4.12 4.13 4.14 4.15 4.16 4.17 4.18 4.19 4.20 4.21 4.22 4.23 4.24 4.25 4.26 4.27 4.28 4.29 4.30 4.31 4.32 4.33 4.34 4.35 4.36 4.37 4.38 4.39 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. ↑ Jump up to: 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]

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  • This page was last edited on 11 March 2016, at 06:56.
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