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m (Text replacement - "gene Genbank" to "gene RefSeq")
m (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "")
 
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__TOC__
<protect>
<protect>
<aureodatabase>NCBI date</aureodatabase>
<aureodatabase>annotation</aureodatabase>


=Summary=
=Summary=


* <aureodatabase>organism</aureodatabase>
*<aureodatabase>organism</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>pan locus</aureodatabase>
*<aureodatabase>pan locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>pan gene symbol</aureodatabase>
*<aureodatabase>pan gene symbol</aureodatabase>
* <aureodatabase>gene synonyms</aureodatabase>
*<aureodatabase>gene synonyms</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
</protect>
</protect>


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==General==
==General==


* <aureodatabase>gene type</aureodatabase>
*<aureodatabase>gene type</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
* <aureodatabase>gene replicon</aureodatabase>
*<aureodatabase>gene replicon</aureodatabase>
* <aureodatabase>strand</aureodatabase>
*<aureodatabase>strand</aureodatabase>
* <aureodatabase>gene coordinates</aureodatabase>
*<aureodatabase>gene coordinates</aureodatabase>
* <aureodatabase>gene length</aureodatabase>
*<aureodatabase>gene length</aureodatabase>
* <aureodatabase>essential</aureodatabase>
*<aureodatabase>essential</aureodatabase>
*<aureodatabase>gene comment</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>gene GI</aureodatabase>
*<aureodatabase>gene GI</aureodatabase>
* <aureodatabase>gene RefSeq</aureodatabase>
*<aureodatabase>gene RefSeq</aureodatabase>
*<aureodatabase>gene BioCyc</aureodatabase>
*<aureodatabase>gene MicrobesOnline</aureodatabase>
</protect>
</protect>
   
   
<protect>  
<protect>
==Phenotype==
==Phenotype==
</protect>
</protect>
* Share your knowledge and add information here. [<span class="plainlinks">[http://www.protecs.uni-greifswald.de/aureowiki/index.php?title={{PAGENAMEE}}&action=edit&section=6 edit]</span>]
Share your knowledge and add information here. [<span class="plainlinks">[//aureowiki.med.uni-greifswald.de/index.php?title={{PAGENAMEE}}&veaction=edit&section=6 edit]</span>]


<protect>
<protect>
==DNA sequence==
==DNA sequence==


* <aureodatabase>gene sequence</aureodatabase>
*<aureodatabase>gene sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
<aureodatabase>RNA regulated operons</aureodatabase>
</protect>


<protect>
=Protein=
=Protein=
<aureodatabase>protein 3D view</aureodatabase>
<aureodatabase>protein 3D view</aureodatabase>
==General==
==General==


* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>protein symbol</aureodatabase>
*<aureodatabase>protein symbol</aureodatabase>
* <aureodatabase>protein description</aureodatabase>
*<aureodatabase>protein description</aureodatabase>
* <aureodatabase>protein length</aureodatabase>
*<aureodatabase>protein length</aureodatabase>
* <aureodatabase>theoretical pI</aureodatabase>
*<aureodatabase>theoretical pI</aureodatabase>
* <aureodatabase>theoretical MW</aureodatabase>
*<aureodatabase>theoretical MW</aureodatabase>
* <aureodatabase>GRAVY</aureodatabase>
*<aureodatabase>GRAVY</aureodatabase>
</protect>
</protect>


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==Function==
==Function==


* <aureodatabase>protein reaction</aureodatabase>
*<aureodatabase>protein reaction</aureodatabase>
* <aureodatabase>protein TIGRFAM</aureodatabase>
*<aureodatabase>protein TIGRFAM</aureodatabase>
* <aureodatabase>protein TheSeed</aureodatabase>
*<aureodatabase>protein TheSeed</aureodatabase>
* <aureodatabase>protein PFAM</aureodatabase>
*<aureodatabase>protein PFAM</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Structure, modifications & interactions==
==Structure, modifications & cofactors==


* <aureodatabase>protein domains</aureodatabase>
*<aureodatabase>protein domains</aureodatabase>
* <aureodatabase>protein modifications</aureodatabase>
*<aureodatabase>protein modifications</aureodatabase>
* <aureodatabase>protein cofactors</aureodatabase>
*<aureodatabase>protein cofactors</aureodatabase>
* <aureodatabase>protein effectors</aureodatabase>
*<aureodatabase>protein effectors</aureodatabase>
* <aureodatabase>protein partners</aureodatabase>
*<aureodatabase>protein regulated operons</aureodatabase>
</protect>
</protect>


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==Localization==
==Localization==


* <aureodatabase>protein Psortb</aureodatabase>
*<aureodatabase>protein Psortb</aureodatabase>
* <aureodatabase>protein LocateP</aureodatabase>
*<aureodatabase>protein LocateP</aureodatabase>
* <aureodatabase>protein SignalP</aureodatabase>
*<aureodatabase>protein SignalP</aureodatabase>
* <aureodatabase>protein TMHMM</aureodatabase>
*<aureodatabase>protein TMHMM</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>protein GI</aureodatabase>
*<aureodatabase>protein GI</aureodatabase>
* <aureodatabase>protein UniProt</aureodatabase>
*<aureodatabase>protein RefSeq</aureodatabase>
* <aureodatabase>protein Genbank</aureodatabase>
*<aureodatabase>protein UniProt</aureodatabase>
* <aureodatabase>protein RefSeq</aureodatabase>
</protect>
</protect>


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==Protein sequence==
==Protein sequence==


* <aureodatabase>protein sequence</aureodatabase>
*<aureodatabase>protein sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Peptides==
==Experimental data==


* <aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated localization</aureodatabase>
*<aureodatabase>protein validated quantitative data</aureodatabase>
*<aureodatabase>protein partners</aureodatabase>
</protect>
</protect>


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==Operon==
==Operon==


* <aureodatabase>operons</aureodatabase>
*<aureodatabase>operons</aureodatabase>
</protect>
</protect>


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==Regulation==
==Regulation==


* <aureodatabase>sigma factors</aureodatabase>
*<aureodatabase>regulators</aureodatabase>
* <aureodatabase>regulators</aureodatabase>
</protect>
</protect>


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==Transcription pattern==
==Transcription pattern==


* <aureodatabase>expression browser</aureodatabase>
*<aureodatabase>expression browser</aureodatabase>
</protect>
</protect>


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==Protein synthesis (provided by Aureolib)==
==Protein synthesis (provided by Aureolib)==


* <aureodatabase>protein synthesis Aureolib</aureodatabase>
*<aureodatabase>protein synthesis Aureolib</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Stability==
==Protein stability==


* <aureodatabase>protein half-life</aureodatabase>
*<aureodatabase>protein half-life</aureodatabase>
</protect>
</protect>


Latest revision as of 22:22, 10 March 2016

NCBI: 26-AUG-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA2406 [new locus tag: SA_RS13765 ]
  • pan locus tag?: SAUPAN006314000
  • symbol: gbsA
  • pan gene symbol?: betB
  • synonym:
  • product: glycine betaine aldehyde dehydrogenase gbsA

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SA2406 [new locus tag: SA_RS13765 ]
  • symbol: gbsA
  • product: glycine betaine aldehyde dehydrogenase gbsA
  • replicon: chromosome
  • strand: -
  • coordinates: 2696247..2697737
  • length: 1491
  • essential: yes 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
    ATGGAACTTTTAAAACATTTATCTCAGCGTCAATATATTGATGGTGAGTGGGTTGAAAGC
    ACGAATAAAAATACAAGAGATATTATCAATCCTTACAATCAAGAAGTGATATTTACGGTT
    TCTGAAGGGACAAAAGAGGATGCAGAACGTGCAATCTTAGCTGCAAGACGTGCGTTTGAG
    TCTGGTGAATGGTCGCAAGAAACTGCTGAAAAAAGAGGTAAAAAAGTACGTGCCATCGCG
    GACAAGATCAAAGAACATCGCGAAGCGTTAGCACGATTAGAAACATTAGATACTGGAAAA
    ACGTTAGAAGAATCATATGCAGATATGGATGATATTCATAATGTGTTTATGTATTTTGCT
    GGATTAGCAGATAAAGATGGTGGCGAAATGATTGATTCACCAATTCCAGATACAGAAAGC
    AAAATTGTTAAAGAACCAGTAGGTGTAGTTACACAAATTACACCTTGGAATTATCCGTTA
    TTACAAGCATCATGGAAAATTGCGCCAGCGCTTGCTACGGGTTGTTCACTAGTTATGAAA
    CCAAGTGAAATTACACCATTAACAACAATACGTGTTTTTGAATTAATGGAAGAAGTTGGT
    TTCCCTAAAGGAACAATTAATCTTATTCTAGGTGCAGGTTCTGAAGTTGGTGACGTAATG
    TCAGGTCATAAAGAGGTTGACCTTGTATCATTTACAGGTGGCATTGAGACTGGTAAGCAT
    ATTATGAAAAATGCTGCTAATAATGTTACGAATATTGCCTTGGAACTTGGCGGTAAAAAT
    CCAAACATTATCTTTGATGATGCTGATTTTGAATTGGCAGTAGACCAAGCGTTAAATGGT
    GGATATTTTCATGCAGGTCAAGTTTGTTCAGCAGGATCAAGAATATTAGTACAAAACAGT
    ATTAAAGACAAATTTGAGCAAGCACTTATTGATCGCGTGAAAAAAATCAAATTAGGTAAT
    GGTTTTGATGCTGATACTGAAATGGGACCAGTGATTTCAACAGAACATCGTAATAAGATC
    GAATCTTATATGGATGTAGCTAAAGCAGAAGGCGCAACAATTGCTGTTGGTGGTAAACGT
    CCAGATAGAGACGATTTAAAAGATGGTCTATTCTTCGAGCCAACAGTCATTACAAATTGT
    GATACGTCAATGCGTATTGTACAAGAAGAGGTTTTCGGACCTGTCGTTACTGTAGAAGGC
    TTTGAAACTGAACAAGAAGCGATTCAATTAGCGAATGATTCTATATATGGTTTAGCAGGT
    GCTGTATTTTCTAAAGATATTGGAAAAGCACAACGCGTTGCTAACAAGTTGAAACTTGGA
    ACGGTGTGGATTAATGATTTCCATCCATATTTTGCACAAGCGCCATGGGGTGGATACAAA
    CAATCAGGTATCGGTAGAGAATTAGGCAAAGAAGGCTTAGAAGAGTACCTTGTTTCAAAA
    CACATTTTAACAAATACAAATCCACAATTAGTGAATTGGTTTAGCAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1491

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SA2406 [new locus tag: SA_RS13765 ]
  • symbol: GbsA
  • description: glycine betaine aldehyde dehydrogenase gbsA
  • length: 496
  • theoretical pI: 4.7412
  • theoretical MW: 54679.5
  • GRAVY: -0.31754

⊟Function[edit | edit source]

  • reaction:
    EC 1.2.1.8  ExPASy
    Betaine-aldehyde dehydrogenase Betaine aldehyde + NAD+ + H2O = betaine + NADH?
  • TIGRFAM:
    Cellular processes Cellular processes Adaptations to atypical conditions betaine-aldehyde dehydrogenase (TIGR01804; EC 1.2.1.8; HMM-score: 776.2)
    and 14 more
    5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase (TIGR02299; EC 1.2.1.60; HMM-score: 483.9)
    Metabolism Energy metabolism Other 2-hydroxymuconic semialdehyde dehydrogenase (TIGR03216; EC 1.2.1.-; HMM-score: 432.3)
    Metabolism Central intermediary metabolism Other succinate-semialdehyde dehydrogenase (TIGR01780; EC 1.2.1.-; HMM-score: 407.2)
    1-pyrroline dehydrogenase (TIGR03374; EC 1.2.1.19; HMM-score: 400)
    Unknown function Enzymes of unknown specificity aldehyde dehydrogenase, Rv0768 family (TIGR04284; EC 1.2.1.-; HMM-score: 384.4)
    Metabolism Energy metabolism Amino acids and amines putative delta-1-pyrroline-5-carboxylate dehydrogenase (TIGR01237; EC 1.2.1.88; HMM-score: 313.1)
    putative phosphonoacetaldehyde dehydrogenase (TIGR03250; EC 1.2.1.-; HMM-score: 299.9)
    Metabolism Energy metabolism Amino acids and amines methylmalonate-semialdehyde dehydrogenase (acylating) (TIGR01722; EC 1.2.1.27; HMM-score: 284.4)
    Metabolism Energy metabolism Amino acids and amines succinylglutamate-semialdehyde dehydrogenase (TIGR03240; EC 1.2.1.71; HMM-score: 237.5)
    Metabolism Energy metabolism Amino acids and amines delta-1-pyrroline-5-carboxylate dehydrogenase (TIGR01238; EC 1.2.1.88; HMM-score: 212.4)
    Metabolism Energy metabolism Amino acids and amines 1-pyrroline-5-carboxylate dehydrogenase (TIGR01236; EC 1.2.1.88; HMM-score: 195)
    phenylacetic acid degradation protein paaN (TIGR02278; HMM-score: 156.7)
    acetaldehyde dehydrogenase (acetylating) (TIGR02518; EC 1.2.1.10; HMM-score: 51.6)
    phenylacetic acid degradation protein paaN (TIGR02288; HMM-score: 41.2)
  • TheSEED  :
    • Betaine-aldehyde dehydrogenase (EC 1.2.1.8)
    Stress Response Osmotic stress Choline and Betaine Uptake and Betaine Biosynthesis  Betaine aldehyde dehydrogenase (EC 1.2.1.8)
  • PFAM:
    ALDH-like (CL0099) Aldedh; Aldehyde dehydrogenase family (PF00171; HMM-score: 584.4)
    and 7 more
    T3SS-Chaperone (CL0419) YscO-like; YscO-like protein (PF16789; HMM-score: 17.4)
    ALDH-like (CL0099) DUF1487; Protein of unknown function (DUF1487) (PF07368; HMM-score: 15.7)
    no clan defined SART-1; SART-1 family (PF03343; HMM-score: 14.1)
    DUF1465; Protein of unknown function (DUF1465) (PF07323; HMM-score: 12.5)
    Hybrid (CL0105) GARS_C; Phosphoribosylglycinamide synthetase, C domain (PF02843; HMM-score: 12.3)
    TPR (CL0020) RPN7; 26S proteasome subunit RPN7 (PF10602; HMM-score: 12)
    no clan defined RPEL; RPEL repeat (PF02755; HMM-score: 10.5)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • 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): 0.003202
    • TAT(Tat/SPI): 0.000196
    • LIPO(Sec/SPII): 0.000454
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MELLKHLSQRQYIDGEWVESTNKNTRDIINPYNQEVIFTVSEGTKEDAERAILAARRAFESGEWSQETAEKRGKKVRAIADKIKEHREALARLETLDTGKTLEESYADMDDIHNVFMYFAGLADKDGGEMIDSPIPDTESKIVKEPVGVVTQITPWNYPLLQASWKIAPALATGCSLVMKPSEITPLTTIRVFELMEEVGFPKGTINLILGAGSEVGDVMSGHKEVDLVSFTGGIETGKHIMKNAANNVTNIALELGGKNPNIIFDDADFELAVDQALNGGYFHAGQVCSAGSRILVQNSIKDKFEQALIDRVKKIKLGNGFDADTEMGPVISTEHRNKIESYMDVAKAEGATIAVGGKRPDRDDLKDGLFFEPTVITNCDTSMRIVQEEVFGPVVTVEGFETEQEAIQLANDSIYGLAGAVFSKDIGKAQRVANKLKLGTVWINDFHPYFAQAPWGGYKQSGIGRELGKEGLEEYLVSKHILTNTNPQLVNWFSK

⊟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:

⊟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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

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