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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> | <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 12:49, 11 March 2016
NCBI: 02-MAR-2017
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus USA300_FPR3757
- locus tag: SAUSA300_RS09210 [old locus tag: SAUSA300_1685 ]
- pan locus tag?: SAUPAN004406000
- symbol: SAUSA300_RS09210
- pan gene symbol?: facZ
- synonym:
- product: DUF948 domain containing protein
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: SAUSA300_RS09210 [old locus tag: SAUSA300_1685 ]
- symbol: SAUSA300_RS09210
- product: DUF948 domain containing protein
- replicon: chromosome
- strand: -
- coordinates: 1857697..1858188
- length: 492
- essential: unknown other strains
⊟Accession numbers[edit | edit source]
- Location: NC_007793 (1857697..1858188) NCBI
- BioCyc: see SAUSA300_1685
- MicrobesOnline: see SAUSA300_1685
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
- 1
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481ATGGATTGGATTTTACCAATTGCTGGAATTATCGCTGCGATTGCATTCTTAATTTTATGT
ATCGGTATCGTAGCTGTATTAAATTCTGTTAAGAAAAACTTAGATTATGTTGCAAAAACA
CTTGACGGTGTAGAAGGTCAAGTTCAAGGTATTACTCGTGAAACAACAGATTTACTTCAT
AAAGTAAACCGTTTAACTGAGGATATCCAAGGTAAAGTAGATCGTTTAAACTCAGTTGTA
GATGCTGTTAAAGGTATCGGTGACTCAGTACAAACGTTAAACAGCTCTGTAGATCGTGTA
ACAAATTCAATTACACATAATATTTCTCAAAATGAAGATAAAATCTCACAAGTTGTTCAA
TGGTCAAATGTTGCAATGGAAATTGCAGACAAATGGCAAAATAGACACTACCGTCGTGGA
AGTGCAAATTACAAAGCTAATAATGTAGCAACTGATGCAAATCATAGCTATACTTCTAGA
GTAGATAAATAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: SAUSA300_RS09210 [old locus tag: SAUSA300_1685 ]
- symbol: SAUSA300_RS09210
- description: DUF948 domain containing protein
- length: 163
- theoretical pI: 7.67054
- theoretical MW: 18002.2
- GRAVY: -0.220245
⊟Function[edit | edit source]
- TIGRFAM: Cellular processes Pathogenesis virulence factor Mce family protein (TIGR00996; HMM-score: 33)and 7 moreCellular processes Cell division chromosome segregation protein SMC (TIGR02168; HMM-score: 14.3)DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02168; HMM-score: 14.3)helix-rich protein (TIGR04523; HMM-score: 14.1)Transport and binding proteins Unknown substrate transport protein (TIGR00833; HMM-score: 13.5)Cellular processes Cell division chromosome segregation protein SMC (TIGR02169; HMM-score: 13.5)DNA metabolism Chromosome-associated proteins chromosome segregation protein SMC (TIGR02169; HMM-score: 13.5)two transmembrane protein (TIGR04527; HMM-score: 10.8)
- TheSEED: see SAUSA300_1685
- PFAM: no clan defined DUF948; Bacterial protein of unknown function (DUF948) (PF06103; HMM-score: 98.9)and 42 moreBaculo_PEP_C; Baculovirus polyhedron envelope protein, PEP, C terminus (PF04513; HMM-score: 23.1)Laminin_II; Laminin Domain II (PF06009; HMM-score: 21.3)Focal_AT; Focal adhesion targeting region (PF03623; HMM-score: 20.4)Reo_sigma (CL0326) Reo_sigmaC; Reovirus sigma C capsid protein (PF04582; HMM-score: 19.6)no clan defined HsbA; Hydrophobic surface binding protein A (PF12296; HMM-score: 19)IncA; IncA protein (PF04156; HMM-score: 17.7)Vps51 (CL0295) COG6; Conserved oligomeric complex COG6 (PF06419; HMM-score: 17.5)no clan defined Collagen_mid; Bacterial collagen, middle region (PF15984; HMM-score: 16.7)Sec34; Sec34-like family (PF04136; HMM-score: 16.5)Gp58; gp58-like protein (PF07902; HMM-score: 16.4)BORCS6; BLOC-1-related complex sub-unit 6 (PF10157; HMM-score: 16.2)STAND_N (CL0587) SesA; N-terminal domain on NACHT_NTPase and P-loop NTPases (PF17107; HMM-score: 16.2)no clan defined MCPsignal; Methyl-accepting chemotaxis protein (MCP) signalling domain (PF00015; HMM-score: 16.1)DUF1664; Protein of unknown function (DUF1664) (PF07889; HMM-score: 15.8)FlaC_arch; Flagella accessory protein C (FlaC) (PF05377; HMM-score: 15.7)BLOC1_2; Biogenesis of lysosome-related organelles complex-1 subunit 2 (PF10046; HMM-score: 15.6)Tweety; Tweety (PF04906; HMM-score: 15.1)BORCS8; BLOC-1-related complex sub-unit 8 (PF10167; HMM-score: 15)NPV_P10; Nucleopolyhedrovirus P10 protein (PF05531; HMM-score: 14.7)MSP1b; Major surface protein 1B (PF03429; HMM-score: 14.2)UPF0184; Uncharacterised protein family (UPF0184) (PF03670; HMM-score: 14.2)DUF3450; Protein of unknown function (DUF3450) (PF11932; HMM-score: 14.2)PDDEXK (CL0236) RmuC; RmuC family (PF02646; HMM-score: 14.1)Vps51 (CL0295) COG2; COG (conserved oligomeric Golgi) complex component, COG2 (PF06148; HMM-score: 14.1)no clan defined EzrA; Septation ring formation regulator, EzrA (PF06160; HMM-score: 14.1)AI-2E_transport; AI-2E family transporter (PF01594; HMM-score: 14)Fzo_mitofusin; fzo-like conserved region (PF04799; HMM-score: 13.9)Laminin_I; Laminin Domain I (PF06008; HMM-score: 13.8)SNARE-fusion (CL0445) Syntaxin_2; Syntaxin-like protein (PF14523; HMM-score: 13.8)no clan defined BORCS7; BLOC-1-related complex sub-unit 7 (PF16088; HMM-score: 13.8)DUF16; Protein of unknown function DUF16 (PF01519; HMM-score: 13.7)Vps51 (CL0295) COG5; Golgi transport complex subunit 5 (PF10392; HMM-score: 13.5)no clan defined ApoLp-III; Apolipophorin-III precursor (apoLp-III) (PF07464; HMM-score: 13.2)DUF4446; Protein of unknown function (DUF4446) (PF14584; HMM-score: 13.2)DivIVA; DivIVA protein (PF05103; HMM-score: 13)Cluap1; Clusterin-associated protein-1 (PF10234; HMM-score: 12.6)Prominin; Prominin (PF05478; HMM-score: 12.4)Chlorosome_CsmC; Chlorosome envelope protein C (PF11098; HMM-score: 12)DASH_Dad2; DASH complex subunit Dad2 (PF08654; HMM-score: 11.4)GP41; Retroviral envelope protein (PF00517; HMM-score: 11.1)OML_zippers (CL0590) LPP; Lipoprotein leucine-zipper (PF04728; HMM-score: 9.8)no clan defined Trns_repr_metal; Metal-sensitive transcriptional repressor (PF02583; HMM-score: 8.8)
⊟Structure, modifications & cofactors[edit | edit source]
- domains:
- modifications:
- cofactors:
- effectors:
⊟Localization[edit | edit source]
- PSORTb: Cytoplasmic
- Cytoplasmic Score: 7.5
- Cytoplasmic Membrane Score: 1.15
- Cellwall Score: 0.62
- Extracellular Score: 0.73
- Internal Helix: 1
- LocateP:
- SignalP: no predicted signal peptide
- SP(Sec/SPI): 0.089509
- TAT(Tat/SPI): 0.00082
- LIPO(Sec/SPII): 0.071432
- predicted transmembrane helices (TMHMM): 1
⊟Accession numbers[edit | edit source]
- GI: 446305959 NCBI
- RefSeq: WP_000383814 NCBI
- UniProt: see SAUSA300_1685
⊟Protein sequence[edit | edit source]
- MDWILPIAGIIAAIAFLILCIGIVAVLNSVKKNLDYVAKTLDGVEGQVQGITRETTDLLHKVNRLTEDIQGKVDRLNSVVDAVKGIGDSVQTLNSSVDRVTNSITHNISQNEDKISQVVQWSNVAMEIADKWQNRHYRRGSANYKANNVATDANHSYTSRVDK
⊟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:
- interaction partners:
SAUSA300_RS02800 50S ribosomal protein L1 [1] (data from MRSA252) SAUSA300_RS05350 pyruvate dehydrogenase E1 component subunit alpha [1] (data from MRSA252) SAUSA300_RS05355 pyruvate dehydrogenase E1 component subunit beta [1] (data from MRSA252) SAUSA300_RS05360 dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [1] (data from MRSA252) SAUSA300_RS07105 2-oxoglutarate dehydrogenase E1 component [1] (data from MRSA252) SAUSA300_RS08395 molecular chaperone DnaK [1] (data from MRSA252) SAUSA300_RS08975 pyruvate kinase [1] (data from MRSA252) SAUSA300_RS12150 50S ribosomal protein L3 [1] (data from MRSA252)
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
⊟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.
⊟Literature[edit | edit source]
⊟References[edit | edit source]
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
J Proteome Res: 2011, 10(3);1139-50
[PubMed:21166474] [WorldCat.org] [DOI] (I p)