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m (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "")
m (Text replacement - "gene Genbank" to "gene RefSeq")
 
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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 location</aureodatabase>
* <aureodatabase>gene Genbank</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 RefSeq</aureodatabase>
*<aureodatabase>protein UniProt</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 19:22, 10 March 2016

NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus USA300_FPR3757
  • locus tag: SAUSA300_RS05535 [old locus tag: SAUSA300_1028 ]
  • pan locus tag?: SAUPAN003358000
  • symbol: SAUSA300_RS05535
  • pan gene symbol?: isdB
  • synonym:
  • product: iron-regulated surface determinant protein B

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAUSA300_RS05535 [old locus tag: SAUSA300_1028 ]
  • symbol: SAUSA300_RS05535
  • product: iron-regulated surface determinant protein B
  • replicon: chromosome
  • strand: -
  • coordinates: 1122351..1124288
  • length: 1938
  • 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
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    ATGAACAAACAGCAAAAAGAATTTAAATCATTTTATTCAATTAGAAAGTCATCACTAGGC
    GTTGCATCTGTAGCAATTAGTACACTTTTATTATTAATGTCAAATGGCGAAGCACAAGCA
    GCAGCTGAAGAAACAGGTGGTACAAATACAGAAGCACAACCAAAAACTGAAGCAGTTGCA
    AGTCCAACAACAACATCTGAAAAAGCTCCAGAAACTAAACCAGTAGCTAATGCTGTCTCA
    GTATCTAATAAAGAAGTTGAGGCCCCTACTTCTGAAACAAAAGAAGCTAAAGAAGTTAAA
    GAAGTTAAAGCCCCTAAGGAAACAAAAGAAGTTAAACCAGCAGCAAAAGCCACTAACAAT
    ACATATCCTATTTTGAATCAGGAACTTAGAGAAGCGATTAAAAACCCTGCAATAAAAGAC
    AAAGATCATAGCGCACCAAACTCTCGTCCAATTGATTTTGAAATGAAAAAGAAAGATGGA
    ACTCAACAGTTTTATCATTATGCAAGTTCTGTTAAACCTGCTAGAGTTATTTTCACTGAT
    TCAAAACCAGAAATTGAATTAGGATTACAATCAGGTCAATTTTGGAGAAAATTTGAAGTT
    TATGAAGGTGACAAAAAGTTGCCAATTAAATTAGTATCATACGATACTGTTAAAGATTAT
    GCTTACATTCGCTTCTCTGTATCAAACGGAACAAAAGCTGTTAAAATTGTTAGTTCAACA
    CACTTCAATAACAAAGAAGAAAAATACGATTACACATTAATGGAATTCGCACAACCAATT
    TATAACAGTGCAGATAAATTCAAAACTGAAGAAGATTATAAAGCTGAAAAATTATTAGCG
    CCATATAAAAAAGCGAAAACACTAGAAAGACAAGTTTATGAATTAAATAAAATTCAAGAT
    AAACTTCCTGAAAAATTAAAGGCTGAGTACAAGAAGAAATTAGAGGATACAAAGAAAGCT
    TTAGATGAGCAAGTGAAATCAGCTATTACTGAATTCCAAAATGTACAACCAACAAATGAA
    AAAATGACTGATTTACAAGATACAAAATATGTTGTTTATGAAAGTGTTGAGAATAACGAA
    TCTATGATGGATACTTTTGTTAAACACCCTATTAAAACAGGTATGCTTAACGGCAAAAAA
    TATATGGTCATGGAAACTACTAATGACGATTACTGGAAAGATTTCATGGTTGAAGGTCAA
    CGTGTTAGAACTATAAGCAAAGATGCTAAAAATAATACTAGAACAATTATTTTCCCATAT
    GTTGAAGGTAAAACTCTATATGATGCTATCGTTAAAGTTCACGTAAAAACGATTGATTAT
    GATGGACAATACCATGTCAGAATCGTTGATAAAGAAGCATTTACAAAAGCCAATACCGAT
    AAATCTAACAAAAAAGAACAACAAGATAACTCAGCTAAGAAGGAAGCTACTCCAGCTACG
    CCTAGCAAACCAACACCATCACCTGTTGAAAAAGAATCACAAAAACAAGACAGCCAAAAA
    GATGACAATAAACAATTACCAAGTGTTGAAAAAGAAAATGACGCATCTAGTGAGTCAGGT
    AAAGACAAAACGCCTGCTACAAAACCAACTAAAGGTGAAGTAGAATCAAGTAGTACAACT
    CCAACTAAGGTAGTATCTACGACTCAAAATGTTGCAAAACCAACAACTGCTTCATCAAAA
    ACAACAAAAGATGTTGTTCAAACTTCAGCAGGTTCTAGCGAAGCAAAAGATAGTGCTCCA
    TTACAAAAAGCAAACATTAAAAACACAAATGATGGACACACTCAAAGCCAAAACAATAAA
    AATACACAAGAAAATAAAGCAAAATCATTACCACAAACTGGTGAAGAATCAAATAAAGAT
    ATGACATTACCATTAATGGCATTATTAGCTTTAAGTAGCATCGTTGCATTCGTATTACCT
    AGAAAACGTAAAAACTAA
    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
    1740
    1800
    1860
    1920
    1938

⊟Protein[edit | edit source]

Protein Data Bank: 5D1Q
Protein Data Bank: 5D1X
Protein Data Bank: 5D1Z

⊟General[edit | edit source]

  • locus tag: SAUSA300_RS05535 [old locus tag: SAUSA300_1028 ]
  • symbol: SAUSA300_RS05535
  • description: iron-regulated surface determinant protein B
  • length: 645
  • theoretical pI: 9.6043
  • theoretical MW: 72191.7
  • GRAVY: -0.943101

⊟Function[edit | edit source]

  • TIGRFAM:
    heme uptake protein IsdB (TIGR03657; HMM-score: 1483.3)
    and 4 more
    haptoglobin-binding heme uptake protein HarA (TIGR03658; HMM-score: 521.9)
    heme uptake protein IsdC (TIGR03656; HMM-score: 41.9)
    gram-positive signal peptide, YSIRK family (TIGR01168; HMM-score: 39)
    Cell structure Cell envelope Other LPXTG cell wall anchor domain (TIGR01167; HMM-score: 18.2)
  • TheSEED: see SAUSA300_1028
  • PFAM:
    no clan defined NEAT; Iron Transport-associated domain (PF05031; HMM-score: 94)
    and 3 more
    YSIRK_signal; YSIRK type signal peptide (PF04650; HMM-score: 34.7)
    Gram_pos_anchor; LPXTG cell wall anchor motif (PF00746; HMM-score: 32.9)
    Proton_antipo_C; NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus (PF01010; HMM-score: 11.7)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cellwall
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 10
    • Extracellular Score: 0
    • Internal Helices: 2
  • LocateP:
  • SignalP: Signal peptide SP(Sec/SPI) length 40 aa
    • SP(Sec/SPI): 0.958209
    • TAT(Tat/SPI): 0.037585
    • LIPO(Sec/SPII): 0.001797
    • Cleavage Site: CS pos: 40-41. AQA-AA. Pr: 0.6565
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNKQQKEFKSFYSIRKSSLGVASVAISTLLLLMSNGEAQAAAEETGGTNTEAQPKTEAVASPTTTSEKAPETKPVANAVSVSNKEVEAPTSETKEAKEVKEVKAPKETKEVKPAAKATNNTYPILNQELREAIKNPAIKDKDHSAPNSRPIDFEMKKKDGTQQFYHYASSVKPARVIFTDSKPEIELGLQSGQFWRKFEVYEGDKKLPIKLVSYDTVKDYAYIRFSVSNGTKAVKIVSSTHFNNKEEKYDYTLMEFAQPIYNSADKFKTEEDYKAEKLLAPYKKAKTLERQVYELNKIQDKLPEKLKAEYKKKLEDTKKALDEQVKSAITEFQNVQPTNEKMTDLQDTKYVVYESVENNESMMDTFVKHPIKTGMLNGKKYMVMETTNDDYWKDFMVEGQRVRTISKDAKNNTRTIIFPYVEGKTLYDAIVKVHVKTIDYDGQYHVRIVDKEAFTKANTDKSNKKEQQDNSAKKEATPATPSKPTPSPVEKESQKQDSQKDDNKQLPSVEKENDASSESGKDKTPATKPTKGEVESSSTTPTKVVSTTQNVAKPTTASSKTTKDVVQTSAGSSEAKDSAPLQKANIKNTNDGHTQSQNNKNTQENKAKSLPQTGEESNKDMTLPLMALLALSSIVAFVLPRKRKN

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[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]

⊟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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