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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 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">[//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 14:00, 11 March 2016
NCBI: 10-JUN-2013
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus USA300_FPR3757
- locus tag: SAUSA300_1593 [new locus tag: SAUSA300_RS08680 ]
- pan locus tag?: SAUPAN004243000
- symbol: secF
- pan gene symbol?: secDF
- synonym:
- product: bifunctional preprotein translocase subunit SecD/SecF
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: SAUSA300_1593 [new locus tag: SAUSA300_RS08680 ]
- symbol: secF
- product: bifunctional preprotein translocase subunit SecD/SecF
- replicon: chromosome
- strand: -
- coordinates: 1746579..1748858
- length: 2280
- essential: unknown other strains
⊟Accession numbers[edit | edit source]
- Gene ID: 3914727 NCBI
- RefSeq: YP_494288 NCBI
- BioCyc: see SAUSA300_RS08680
- MicrobesOnline: 1293108 MicrobesOnline
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
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2221GTGAAGAAAAGTAGTAGAATAATTGCGTTCTTGCTTTTAGTCGTATTGTTGTTTGCCGGA
ATGGCTGCAACTTATAAAAGTGTTATAAAGAATGTCAATTTAGGACTTGATTTGCAAGGT
GGATTTGAGGTGCTTTATCAAGTCGATCCTTTAAATAAAGGCGACAAAATAGATAAAAAA
GCCTTACAATCAACAGCGCAAACATTAGAAAATCGTGTTAACGTTTTAGGTGTTTCGGAA
CCTAAAATTCAAGTTGAAGAACCTAATAGAATTAGAGTACAACTTGCTGGTGTAACAGAC
CAGAATGAAGCACGTAAAATTTTATCTTCTCAAGCTAATTTAACAATTCGCGATGCAGAA
GATAAAGTAAAATTAAGCGGTTCTGATATTAAACAGGGATCTGCCAAACAAGAATTTAAA
CAGGAAACAAACCAGCCTACAGTTACTTTTAAAGTAAAAGACAAAAACAAATTTAAAAAA
GTAACGGAAGAAATCTCTAAGAAACGTGATAATGTCATGGTTGTTTGGTTAGATTTCAAA
AAAGGTGACAGCTATAAAAAAGAAGCACAAAAGAAAAACCCTAAATTTATTTCTGCAGCA
AGTGTTGATCAACCAATCAATTCTGATAGCGTAGAAATCTCGGGTGGATTTAAAGGACAA
GAAGGCGTTAAAAAAGCAAAACAAATCGCCGAATTGTTAAATGCAGGTTCTTTACCAGTT
GACTTGAAAGAAATTTATTCAAACTCAGTAGGTGCCCAATTTGGTCAAGATGCATTAGAT
AAAACTGTGTTTGCATCGTTTATTGGTGTAGCATTAATTTATTTATTCATGCTTGGATTC
TACCGATTACCTGGTTTAGTAGCGATTATTGCATTGACAACTTATATCTATCTAACGTTA
GTAGCATTTAATTTCATTTCCGGGGTTCTAACTTTACCAGGATTAGCGGCGTTGGTATTA
GGTGTAGGTATGGCTGTAGATGCCAATATTATCATGTATGAGCGTATTAAGGATGAACTT
CGAATAGGTAGAACGATAAAGCAAGCCTTTTCTAAAGCAAACAAAAGTTCATTCCTAACA
ATTTTTGATTCTAACTTAACAACAGTTATCGCCGCAGCAGTATTATTCTTCTTCGGTGAA
AGTTCAGTTAAAGGTTTCGCGACAATGTTATTATTAGGTATTCTAATGATCTTTGTTACA
GCCGTGTTCTTATCAAGATTCTTATTATCATTACTTGTTTCATCAAATATATTCAAAAAT
CAATTTTGGTTATTTGGTGTTAAAAAGAATAAACGACATGATATTAATGAAGGTGTAGAT
GTTCATGACCTTAAAACTTCATTCGAGAAATGGAATTTTGTTAAATTAGCTAAGCCATTA
ATTGGAGTAAGTATTTTAATTGTAGTTGTCGGTTTAGTTATTCTTTATATCTTCAAGTTA
AACTTAGGAATTGATTTCTCAAGTGGTACACGCGTAGATTTCCAATCTAAACAAGCAATT
ACTCAACAAAAGGTAGAGCAAGTTGTAAAAGATAGTGGACTTAAAGCGGATCAAATTCAG
ATCAATGGTAAAGACAATAAAGTAGCAACTGTTCAATTTAAAGACGATTTAACGCGTGCT
CAAGATAATAAATTGAGTGATAATATTAAATCGAAATTCGGTGACACACCTCAAATTAAC
ACTGTATCACCAATTATTGGACAGGAATTAGCAAAAAATGCAATGCTTGCATTAATCTAT
GCATCGATAGGTATCATCATCTATGTATCATTACGATTTGAATGGCGCATGGGTCTTTCA
TCTGTATTGGCATTATTACATGATGTATTCATTATAGTAGCGATTTTCAGTTTATTTAGA
ATTGAAGTAGATTTAACATTTATCGCCGCTGTATTAACAATTGTCGGTTATTCAATTAAT
GATACAATCGTAACGTTTGACCGTGTACGTGAAAACTTACAAAAGGTTAAAGTGATTACG
ACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCA
ATTAATACAGTATTAACAGTTATTGTAGTAGTAGTTGCTATACTATTCTTCGGTGCTCCT
ACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCA
ATCTTCATTGCCGTTCCGCTATGGGGAATAATGAAAAAACGTCAGTTGAAAAAATCGCCG
AAACACAAATTAGTTGTATATAAAGAAAAGAAATCGAACGATGAAAAGATTTTAGTTTAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: SAUSA300_1593 [new locus tag: SAUSA300_RS08680 ]
- symbol: SecF
- description: bifunctional preprotein translocase subunit SecD/SecF
- length: 759
- theoretical pI: 10.3191
- theoretical MW: 84253.3
- GRAVY: 0.234124
⊟Function[edit | edit source]
- TIGRFAM: Protein fate Protein and peptide secretion and trafficking protein-export membrane protein SecD (TIGR01129; HMM-score: 386.9)Protein fate Protein and peptide secretion and trafficking protein-export membrane protein, SecD/SecF family (TIGR00916; HMM-score: 338.2)and 3 moreProtein fate Protein and peptide secretion and trafficking protein-export membrane protein SecF (TIGR00966; HMM-score: 276.2)Transport and binding proteins Unknown substrate efflux transporter, putative, hydrophobe/amphiphile efflux-3 (HAE3) family (TIGR00921; HMM-score: 58.2)Transport and binding proteins Unknown substrate transport protein (TIGR00833; HMM-score: 27.2)
- TheSEED :
- Protein translocase subunit SecD
- Protein translocase subunit SecF
and 1 more - PFAM: RND_permease (CL0322) SecD_SecF; Protein export membrane protein (PF02355; HMM-score: 256)and 6 moreno clan defined Sec_GG; SecD/SecF GG Motif (PF07549; HMM-score: 39.6)RND_permease (CL0322) MMPL; MMPL family (PF03176; HMM-score: 39.2)no clan defined Selenoprotein_S; Selenoprotein S (SelS) (PF06936; HMM-score: 12.7)POTRA (CL0191) POTRA; Surface antigen variable number repeat (PF07244; HMM-score: 12.4)no clan defined SecD-TM1; SecD export protein N-terminal TM region (PF13721; HMM-score: 11.4)BRCT-like (CL0459) RTT107_BRCT_6; Regulator of Ty1 transposition protein 107 BRCT domain (PF16771; HMM-score: 8.6)
⊟Structure, modifications & cofactors[edit | edit source]
- domains:
- modifications:
- cofactors:
- effectors:
⊟Localization[edit | edit source]
- PSORTb: Cytoplasmic Membrane
- Cytoplasmic Score: 0
- Cytoplasmic Membrane Score: 10
- Cellwall Score: 0
- Extracellular Score: 0
- Internal Helices: 12
- LocateP: Multi-transmembrane
- Prediction by SwissProt Classification: Membrane
- Pathway Prediction: Sec-(SPI)
- Intracellular possibility: 0
- Signal peptide possibility: 1
- N-terminally Anchored Score: -1
- Predicted Cleavage Site: No CleavageSite
- SignalP: Signal peptide SP(Sec/SPI) length 22 aa
- SP(Sec/SPI): 0.427618
- TAT(Tat/SPI): 0.00166
- LIPO(Sec/SPII): 0.373685
- Cleavage Site: CS pos: 22-23. GMA-AT. Pr: 0.1458
- predicted transmembrane helices (TMHMM): 12
⊟Accession numbers[edit | edit source]
⊟Protein sequence[edit | edit source]
- MKKSSRIIAFLLLVVLLFAGMAATYKSVIKNVNLGLDLQGGFEVLYQVDPLNKGDKIDKKALQSTAQTLENRVNVLGVSEPKIQVEEPNRIRVQLAGVTDQNEARKILSSQANLTIRDAEDKVKLSGSDIKQGSAKQEFKQETNQPTVTFKVKDKNKFKKVTEEISKKRDNVMVVWLDFKKGDSYKKEAQKKNPKFISAASVDQPINSDSVEISGGFKGQEGVKKAKQIAELLNAGSLPVDLKEIYSNSVGAQFGQDALDKTVFASFIGVALIYLFMLGFYRLPGLVAIIALTTYIYLTLVAFNFISGVLTLPGLAALVLGVGMAVDANIIMYERIKDELRIGRTIKQAFSKANKSSFLTIFDSNLTTVIAAAVLFFFGESSVKGFATMLLLGILMIFVTAVFLSRFLLSLLVSSNIFKNQFWLFGVKKNKRHDINEGVDVHDLKTSFEKWNFVKLAKPLIGVSILIVVVGLVILYIFKLNLGIDFSSGTRVDFQSKQAITQQKVEQVVKDSGLKADQIQINGKDNKVATVQFKDDLTRAQDNKLSDNIKSKFGDTPQINTVSPIIGQELAKNAMLALIYASIGIIIYVSLRFEWRMGLSSVLALLHDVFIIVAIFSLFRIEVDLTFIAAVLTIVGYSINDTIVTFDRVRENLQKVKVITTTEQIDDIVNRSIRQTMTRSINTVLTVIVVVVAILFFGAPTIFNFTLALFIGLISGVFSSIFIAVPLWGIMKKRQLKKSPKHKLVVYKEKKSNDEKILV
⊟Experimental data[edit | edit source]
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
- MicrobesOnline: no polycistronic organisation predicted
⊟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.