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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> | <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 | *<aureodatabase>gene location</aureodatabase> | ||
* <aureodatabase>gene | *<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">[//aureowiki.med.uni-greifswald.de/index.php?title={{PAGENAMEE}}&veaction=edit§ion=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 & | ==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 | *<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 | *<aureodatabase>protein RefSeq</aureodatabase> | ||
* <aureodatabase>protein | *<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> | ||
== | ==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>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> | ||
== | ==Protein stability== | ||
* <aureodatabase>protein half-life</aureodatabase> | *<aureodatabase>protein half-life</aureodatabase> | ||
</protect> | </protect> | ||
Latest revision as of 08:48, 11 March 2016
NCBI: 02-MAR-2017
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus N315
- locus tag: SA_RS02660 [old locus tag: SA0461 ]
- pan locus tag?: SAUPAN002244000
- symbol: SA_RS02660
- pan gene symbol?: mfd
- synonym:
- product: transcription-repair coupling factor
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
⊟Accession numbers[edit | edit source]
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
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3481ATGACAATATTGACAACGCTTATAAAAGAAGATAATCATTTTCAAGACCTTAATCAGGTA
TTTGGACAAGCAAACACACTAGTAACTGGTCTTTCCCCGTCAGCTAAAGTGACGATGATT
GCTGAAAAATATGCACAAAGTAATCAACAGTTATTATTAATTACCAATAATTTATACCAA
GCAGATAAATTAGAAACAGATTTACTTCAATTTATAGATGCTGAAGAATTGTATAAGTAT
CCTGTGCAAGATATTATGACCGAAGAGTTTTCAACACAAAGCCCTCAACTGATGAGTGAA
CGTATTAGAACTTTAACTGCGTTAGCTCAAGGTAAGAAAGGGTTATTTATCGTTCCTTTA
AATGGTTTGAAAAAGTGGTTAACTCCTGTTGAAATGTGGCAAAATCACCAAATGACATTG
CGTGTTGGTGAGGATATCGATGTGGACCAATTTCTTAACAAATTAGTTAATATGGGGTAC
AAACGGGAATCCGTGGTATCGCATATTGGTGAATTCTCATTGCGAGGAGGTATTATCGAT
ATCTTTCCGCTAATTGGGGAACCAATCAGAATTGAGCTATTTGATACCGAAATTGATTCT
ATTCGCGATTTTGATGTTGAAACGCAGCGTTCCAAAGATAATATTGAAGAAGTCGATATC
ACAACTGCAAGTGATTATATCATTACTGAAGAAGTGATTAGACATCTTAAAGAAGAGTTG
AAAACTGCATATGAAAATACAAGACCCAAAATAGATAAATCAGTGCGCAATGATCTGAAA
GAAACGTATGAAAGCTTTAAATTATTCGAAAGTACATACTTTGATCATCAAATACTACGT
CGTTTAGTAGCGTTTATGTATGAAACACCTTCGACAATTATTGAGTATTTCCAAAAAGAT
GCAATCATTGCAGTTGATGAATTTAATCGTATTAAAGAAACTGAAGAAAGTTTAACAGTA
GAGTCTGATTCGTTTATTAGCAATATTATTGAAAGTGGTAATGGATTTATAGGACAAAGT
TTTATAAAATATGATGATTTTGAAACATTGATTGAAGGCTATCCTGTCACTTATTTTTCA
TTATTCGCTACAACAATGCCGATAAAACTAAATCATATTATTAAATTTTCATGTAAACCT
GTCCAACAATTTTATGGGCAATATGACATTATGCGTTCTGAATTTCAACGATATGTCAAT
CAAAATTATCATATCGTGGTTTTGGTCGAAACTGAAACTAAAGTTGAACGTATGCAAGCG
ATGTTAAGTGAAATGCATATTCCATCAATAACAAAATTGCATCGCTCAATGTCATCGGGG
CAAGCAGTGATTATTGAAGGCAGTTTATCTGAAGGATTTGAACTACCTGATATGGGATTA
GTTGTCATTACTGAGCGTGAGCTTTTTAAATCAAAACAGAAAAAGCAACGAAAACGTACG
AAAGCTATCTCAAATGCTGAAAAAATTAAGTCTTACCAAGATTTAAATGTGGGAGATTAT
ATTGTTCATGTGCATCATGGTGTTGGTAGATATTTAGGTGTTGAGACGCTCGAAGTGGGG
CAAACGCATCGTGATTATATTAAATTGCAATATAAAGGTACGGATCAACTATTTGTTCCA
GTAGATCAAATGGATCAAGTTCAAAAATATGTAGCTTCGGAAGATAAGACGCCAAAATTA
AATAAACTCGGTGGCAGTGAATGGAAAAAAACAAAAGCAAAAGTTCAACAAAGTGTTGAA
GATATTGCTGAAGAGTTGATTGATTTATATAAAGAAAGAGAAATGGCAGAAGGTTATCAA
TATGGGGAAGACACAGCTGAGCAAACAACATTTGAATTAGATTTTCCATATGAACTTACG
CCTGACCAAGCTAAATCTATCGATGAAATTAAAGATGACATGCAAAAATCGCGTCCAATG
GATCGCTTGCTATGTGGTGATGTTGGTTATGGTAAAACTGAAGTTGCAGTGAGAGCAGCA
TTCAAAGCTGTAATGGAAGGAAAGCAAGTTGCATTTTTAGTTCCTACAACTATTTTAGCT
CAGCAACATTATGAGACGTTAATTGAGCGTATGCAAGATTTTCCTGTTGAAATTCAATTA
ATGAGTCGTTTTAGAACGCCGAAAGAGATAAAACAAACTAAGGAAGGACTTAAAACTGGG
TTTGTTGACATAGTTGTTGGTACACACAAATTACTTAGTAAAGATATACAGTATAAAGAT
TTAGGGCTGTTGATTGTAGATGAAGAACAACGATTTGGTGTACGCCATAAAGAGCGTATT
AAAACATTAAAACATAATGTAGATGTACTAACATTGACTGCAACCCCAATACCTAGAACA
TTGCATATGAGTATGCTAGGTGTGCGCGATTTGTCAGTGATTGAAACGCCGCCAGAAAAT
CGTTTCCCAGTTCAAACATATGTATTAGAACAGAACATGAGTTTTATCAAAGAAGCTTTA
GAAAGAGAACTATCCCGTGATGGCCAAGTGTTTTATCTTTATAATAAAGTGCAATCCATT
TATGAAAAACGAGAACAACTCCAGATGTTAATGCCAGATGCTAACATTGCAGTTGCTCAT
GGACAAATGACAGAGCGCGATTTAGAAGAAACGATGTTAAGTTTTATCAATAATGAATAT
GATATTTTAGTAACGACGACGATTATTGAAACAGGTGTCGATGTCCCAAATGCAAATACT
TTGATCATTGAAGATGCAGATCGCTTTGGATTGAGTCAGTTGTATCAATTAAGAGGTCGT
GTTGGTCGTTCAAGTCGTATTGGTTATGCATACTTCTTACATCCAGCAAATAAGGTACTA
ACTGAGACTGCAGAAGATCGATTACAAGCGATTAAAGAATTTACGGAGTTAGGCTCAGGA
TTTAAGATTGCGATGCGTGATTTGAACATTCGTGGTGCTGGTAATTTGTTAGGTAAACAA
CAGCACGGCTTTATTGATACAGTTGGATTTGATTTGTACAGTCAAATGTTAGAAGAAGCT
GTAAATGAAAAACGTGGTATTAAGGAACCAGAATCTGAGGTGCCAGAAGTCGAAGTTGAT
TTAAACTTGGATGCATATTTGCCAACAGAATATATTGCAAATGAACAAGCTAAAATTGAA
ATTTATAAAAAGCTACGAAAAACTGAAACATTTGATCAAATTATCGACATTAAAGATGAA
TTAATTGATCGTTTTAATGATTATCCTGTTGAAGTAGCACGTTTGCTTGATATAGTGGAA
ATAAAAGTACACGCATTACATTCAGGTATCACGTTGATTAAAGATAAAGGGAAAATAATT
GATATTCATTTATCTGTAAAAGCCACTGAAAATATTGATGGCGAAGTGCTGTTCAAAGCA
ACACAACCTTTAGGTAGAACAATGAAGGTTGGTGTTCAAAATAATGCAATGACAATTACT
TTAACGAAACAAAATCAATGGCTTGATAGTTTGAAGTTTTTAGTTAAGTGCATTGAAGAA
AGCATGAGAATCAGTGATGAAGCATAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: SA_RS02660 [old locus tag: SA0461 ]
- symbol: SA_RS02660
- description: transcription-repair coupling factor
- length: 1168
- theoretical pI: 4.88536
- theoretical MW: 134301
- GRAVY: -0.368579
⊟Function[edit | edit source]
- reaction: EC 3.6.4.-? ExPASy
- TIGRFAM: DNA metabolism DNA replication, recombination, and repair transcription-repair coupling factor (TIGR00580; EC 3.6.1.-; HMM-score: 1127.4)and 4 moreDNA metabolism DNA replication, recombination, and repair ATP-dependent DNA helicase RecG (TIGR00643; EC 3.6.4.12; HMM-score: 388.6)DNA metabolism DNA replication, recombination, and repair excinuclease ABC subunit B (TIGR00631; EC 3.1.25.-; HMM-score: 90.6)DNA metabolism DNA replication, recombination, and repair primosomal protein N' (TIGR00595; EC 3.6.1.-; HMM-score: 58.2)CRISPR-associated helicase Cas3 (TIGR01587; HMM-score: 46.3)
- TheSEED: see SA0461
- PFAM: no clan defined CarD_CdnL_TRCF; CarD-like/TRCF domain (PF02559; HMM-score: 110.3)and 8 moreTRCF; TRCF domain (PF03461; HMM-score: 82.8)P-loop_NTPase (CL0023) DEAD; DEAD/DEAH box helicase (PF00270; HMM-score: 67.5)Helicase_C; Helicase conserved C-terminal domain (PF00271; HMM-score: 63.5)ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 33)no clan defined Glyco_hydro_115; Glycosyl hydrolase family 115 (PF15979; HMM-score: 16.6)UB2H; Bifunctional transglycosylase second domain (PF14814; HMM-score: 16.3)P-loop_NTPase (CL0023) IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 14.5)AAA_22; AAA domain (PF13401; HMM-score: 12.9)
⊟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:
- SignalP: no predicted signal peptide
- SP(Sec/SPI): 0.006634
- TAT(Tat/SPI): 0.001734
- LIPO(Sec/SPII): 0.000867
- predicted transmembrane helices (TMHMM): 0
⊟Accession numbers[edit | edit source]
⊟Protein sequence[edit | edit source]
- MTILTTLIKEDNHFQDLNQVFGQANTLVTGLSPSAKVTMIAEKYAQSNQQLLLITNNLYQADKLETDLLQFIDAEELYKYPVQDIMTEEFSTQSPQLMSERIRTLTALAQGKKGLFIVPLNGLKKWLTPVEMWQNHQMTLRVGEDIDVDQFLNKLVNMGYKRESVVSHIGEFSLRGGIIDIFPLIGEPIRIELFDTEIDSIRDFDVETQRSKDNIEEVDITTASDYIITEEVIRHLKEELKTAYENTRPKIDKSVRNDLKETYESFKLFESTYFDHQILRRLVAFMYETPSTIIEYFQKDAIIAVDEFNRIKETEESLTVESDSFISNIIESGNGFIGQSFIKYDDFETLIEGYPVTYFSLFATTMPIKLNHIIKFSCKPVQQFYGQYDIMRSEFQRYVNQNYHIVVLVETETKVERMQAMLSEMHIPSITKLHRSMSSGQAVIIEGSLSEGFELPDMGLVVITERELFKSKQKKQRKRTKAISNAEKIKSYQDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTDQLFVPVDQMDQVQKYVASEDKTPKLNKLGGSEWKKTKAKVQQSVEDIAEELIDLYKEREMAEGYQYGEDTAEQTTFELDFPYELTPDQAKSIDEIKDDMQKSRPMDRLLCGDVGYGKTEVAVRAAFKAVMEGKQVAFLVPTTILAQQHYETLIERMQDFPVEIQLMSRFRTPKEIKQTKEGLKTGFVDIVVGTHKLLSKDIQYKDLGLLIVDEEQRFGVRHKERIKTLKHNVDVLTLTATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVLEQNMSFIKEALERELSRDGQVFYLYNKVQSIYEKREQLQMLMPDANIAVAHGQMTERDLEETMLSFINNEYDILVTTTIIETGVDVPNANTLIIEDADRFGLSQLYQLRGRVGRSSRIGYAYFLHPANKVLTETAEDRLQAIKEFTELGSGFKIAMRDLNIRGAGNLLGKQQHGFIDTVGFDLYSQMLEEAVNEKRGIKEPESEVPEVEVDLNLDAYLPTEYIANEQAKIEIYKKLRKTETFDQIIDIKDELIDRFNDYPVEVARLLDIVEIKVHALHSGITLIKDKGKIIDIHLSVKATENIDGEVLFKATQPLGRTMKVGVQNNAMTITLTKQNQWLDSLKFLVKCIEESMRISDEA
⊟Experimental data[edit | edit source]
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
⊟Regulation[edit | edit source]
- regulator:
⊟Transcription pattern[edit | edit source]
- S.aureus Expression Data Browser: data available for NCTC8325
⊟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.