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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 17:03, 10 March 2016

NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0803 [new locus tag: NWMN_RS04545 ]
  • pan locus tag?: SAUPAN003031000
  • symbol: dltA
  • pan gene symbol?: dltA
  • synonym:
  • product: D-alanine--poly(phosphoribitol) ligase subunit 1

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_0803 [new locus tag: NWMN_RS04545 ]
  • symbol: dltA
  • product: D-alanine--poly(phosphoribitol) ligase subunit 1
  • replicon: chromosome
  • strand: +
  • coordinates: 891065..892522
  • length: 1458
  • essential: unknown 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
    ATGACAGATATTATTAACAAGCTGCAAGCGTTTGCGGATGCAAATCCACAAAGCATTGCT
    GTTAGACACACAACTGATGAATTAACTTATCAACAGTTAATGGATGAGTCTAGTAAATTA
    GCACATCGATTACAAGGTAGTAAGAAACCGATGATTTTATTCGGTCACATGTCACCATAT
    ATGATTGTTGGGATGATTGGTGCCATTAAAGCAGGATGTGGATATGTACCTGTAGACACT
    TCAATTCCTGAAGACCGTATTAAAATGATTATTAACAAGGTTCAACCAGAGTTTGTATTT
    AATACGACTGATGAATCATTTGAAAGTTTAGAAGGCGAAGTATTTACAATAGAAGATATT
    AAAACATCTCAAGACCCAGTAATTTTTGATAGTCAGATTAAAGATAACGACACAGTATAC
    ACAATCTTTACATCTGGTTCTACTGGGGAACCTAAAGGTGTTCAAATTGAATATGCAAGT
    TTAGTTCAATTTACTGAGTGGATGTTAGAACTTAATAAATCAGGAAATGAACAACAATGG
    CTTAACCAAGCGCCATTTTCATTTGATTTATCTGTAATGGCTATTTATCCATGTTTAGCA
    TCAGGCGGTACATTAAATCTTGTAGATAAAAACATGATTAATAAACCTAAATTATTAAAT
    GAAATGCTAACAGCAACACCGATTAACATTTGGGTATCAACACCATCATTTATGGAAATG
    TGTTTATTATTACCAACGCTTAATGAAGAACAATATGGTAGTCTTAACGAATTCTTCTTC
    TGTGGTGAAATTCTACCTCACAGAGCAGCAAAAGCGTTAGTAAACCGTTTCCCAAGTGCG
    ACGATTTACAACACATATGGTCCAACTGAAGCTACGGTAGCAGTTACAAGTATTCAAATT
    ACACAAGAAATCTTAGATCAATATCCGACATTACCTGTTGGCGTTGAAAGACCAGGCGCA
    AGATTATCTACTACAGATGAAGGTGAACTTGTTATCGAAGGTCAAAGTGTAAGTTTAGGA
    TACTTAAAAAATGACCAAAAAACAGCTGAAGTATTTAATTTCGATGACGGTATTCGTACA
    TATCACACTGGTGATAAAGCGAAGTTTGAAAATGGTCAATGGTTCATTCAAGGTCGTATT
    GATTTCCAAATCAAATTGAATGGCTACAGAATGGAATTAGAAGAAATTGAAACACAATTA
    CGCCAGTCTGAGTTCGTAAAAGAAGCGATTGTTGTACCTGTATATAAAAATGATAAAGTT
    ATTCATTTAATTGGTGCAATTGTGCCAACGACTGAAGTTACGGACAATGCAGAAATGACT
    AAAAATATTAAAAATGACTTGAAATCACGCTTACCAGAGTATATGATTCCTAGAAAGTTT
    GAATGGATGGAACAATTGCCATTGACTTCAAATGGTAAAATTGACAGAAAGAAAATTGCA
    GAGGTAATTAACGGATGA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1458

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_0803 [new locus tag: NWMN_RS04545 ]
  • symbol: DltA
  • description: D-alanine--poly(phosphoribitol) ligase subunit 1
  • length: 485
  • theoretical pI: 4.55305
  • theoretical MW: 54670.1
  • GRAVY: -0.251959

⊟Function[edit | edit source]

  • reaction:
    EC 6.1.1.13?  ExPASy
    D-alanine--poly(phosphoribitol) ligase ATP + D-alanine + poly(ribitol phosphate) = AMP + diphosphate + O-D-alanyl-poly(ribitol phosphate)
    EC 6.2.1.-?  ExPASy
    D-alanine + ATP + holo-[D-alanyl-carrier protein] = AMP + diphosphate + D-alanyl-[D-alanyl-carrier protein]?
  • TIGRFAM:
    Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan D-alanine--poly(phosphoribitol) ligase, subunit 1 (TIGR01734; EC 6.1.1.13; HMM-score: 755.6)
    and 12 more
    amino acid adenylation domain (TIGR01733; HMM-score: 322.6)
    acyl-CoA ligase (AMP-forming), exosortase A-associated (TIGR03098; HMM-score: 160.7)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone O-succinylbenzoate-CoA ligase (TIGR01923; EC 6.2.1.26; HMM-score: 137.3)
    L-aminoadipate-semialdehyde dehydrogenase (TIGR03443; EC 1.2.1.31; HMM-score: 115.2)
    benzoate-CoA ligase family (TIGR02262; HMM-score: 100.1)
    acetate--CoA ligase (TIGR02188; EC 6.2.1.1; HMM-score: 85)
    Metabolism Transport and binding proteins Cations and iron carrying compounds (2,3-dihydroxybenzoyl)adenylate synthase (TIGR02275; EC 2.7.7.58; HMM-score: 76.9)
    cyclohexanecarboxylate-CoA ligase (TIGR03208; EC 6.2.1.-; HMM-score: 45.4)
    propionate--CoA ligase (TIGR02316; EC 6.2.1.17; HMM-score: 39.6)
    Metabolism Central intermediary metabolism Other acetoacetate-CoA ligase (TIGR01217; EC 6.2.1.16; HMM-score: 38.2)
    dicarboxylate--CoA ligase PimA (TIGR03205; EC 6.2.1.23; HMM-score: 35.4)
    4-coumarate--CoA ligase (TIGR02372; EC 6.2.1.12; HMM-score: 33.2)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    ANL (CL0378) AMP-binding; AMP-binding enzyme (PF00501; HMM-score: 243.5)
    and 2 more
    AMP-binding_C (CL0531) AMP-binding_C; AMP-binding enzyme C-terminal domain (PF13193; HMM-score: 42.4)
    no clan defined NIR_SIR; Nitrite and sulphite reductase 4Fe-4S domain (PF01077; HMM-score: 12.7)

⊟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): 0.004344
    • TAT(Tat/SPI): 0.000288
    • LIPO(Sec/SPII): 0.000819
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTDIINKLQAFADANPQSIAVRHTTDELTYQQLMDESSKLAHRLQGSKKPMILFGHMSPYMIVGMIGAIKAGCGYVPVDTSIPEDRIKMIINKVQPEFVFNTTDESFESLEGEVFTIEDIKTSQDPVIFDSQIKDNDTVYTIFTSGSTGEPKGVQIEYASLVQFTEWMLELNKSGNEQQWLNQAPFSFDLSVMAIYPCLASGGTLNLVDKNMINKPKLLNEMLTATPINIWVSTPSFMEMCLLLPTLNEEQYGSLNEFFFCGEILPHRAAKALVNRFPSATIYNTYGPTEATVAVTSIQITQEILDQYPTLPVGVERPGARLSTTDEGELVIEGQSVSLGYLKNDQKTAEVFNFDDGIRTYHTGDKAKFENGQWFIQGRIDFQIKLNGYRMELEEIETQLRQSEFVKEAIVVPVYKNDKVIHLIGAIVPTTEVTDNAEMTKNIKNDLKSRLPEYMIPRKFEWMEQLPLTSNGKIDRKKIAEVING

⊟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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