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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 05:26, 11 March 2016
NCBI: 02-MAR-2017
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus COL
- locus tag: SACOL_RS13750 [old locus tag: SACOL2627 ]
- pan locus tag?: SAUPAN006313000
- symbol: SACOL_RS13750
- pan gene symbol?: betA
- synonym:
- product: oxygen-dependent choline dehydrogenase
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: SACOL_RS13750 [old locus tag: SACOL2627 ]
- symbol: SACOL_RS13750
- product: oxygen-dependent choline dehydrogenase
- replicon: chromosome
- strand: -
- coordinates: 2685993..2687702
- length: 1710
- 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
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1681ATGAGTAACAAAAACAAATCATATGATTATGTCATCATTGGAGGAGGCAGTGCAGGTTCT
GTACTAGGTAATCGTCTGAGTGAAGATAAAGATAAAGAAGTCTTAGTATTAGAAGCGGGT
CGCAGTGATTATTTTTGGGATTTATTTATCCAAATGCCTGCTGCGTTAATGTTCCCTTCA
GGCAATAAATTTTACGATTGGATTTATTCAACAGATGAAGAACCACATATGGGCGGTCGT
AAAGTAGCACATGCCCGAGGTAAAGTTTTAGGTGGATCAAGTTCGATTAATGGCATGATT
TATCAACGTGGTAATCCAATGGACTATGAAGGCTGGGCAGAACCAGAAGGTATGGAAACT
TGGGATTTTGCGCACTGTTTACCGTATTTTAAAAAATTAGAAAAAACATACGGTGCAGCG
CCTTATGATAAATTTAGAGGCCATGATGGACCAATTAAGTTAAAACGAGGGCCAGCAACG
AATCCTTTATTCCAGTCATTCTTTGATGCAGGTGTTGAAGCAGGCTATCATAAAACACCT
GATGTGAATGGATTTAGACAAGAAGGTTTTGGACCGTTCGATAGTCAAGTACATCGTGGT
CGCCGAATGTCAGCTTCAAGAGCATATTTACATCCAGCGATGAAGCGTAAAAACTTAACC
GTTGAAACACGTGCCTTTGTAACTGAAATTCATTATGAAGGTAGAAGAGCAACTGGTGTT
ACGTATAAGAAAAATGGCAAACTACATACCATCGATGCTAATGAAGTCATTTTGTCTGGT
GGGGCATTCAATACGCCACAATTACTACAATTATCTGGTATCGGTGATTCAGAGTTCCTA
AAATCAAAAGGCATTGAGCCACGTGTTCATTTACCTGGTGTGGGTGAAAACTTTGAAGAT
CACTTAGAGGTATACATTCAACATAAATGTAAGGAACCTGTATCATTACAGCCAAGCTTA
GATATCAAGCGCATGCCATTTATTGGTTTACAATGGATTTTCACACGTACAGGTGCAGCA
GCATCTAACCATTTTGAAGGTGGCGGATTTGTACGTTCAAATAACGAAGTTGATTATCCT
AACTTAATGTTCCATTTCTTACCAATAGCTGTAAGATATGATGGTCAAAAGGCAGCGGTC
GCACATGGTTATCAAGTTCACGTAGGACCAATGTATTCAAACTCTCGTGGTAGCTTGAAA
ATCAAATCTAAAGATCCATTCGAAAAACCAAGTATCCGCTTTAATTATTTATCAACAGAA
GAAGATAAAAAAGAATGGGTAGAAGCAATTCGTGTAGCAAGAAATATCTTATCTCAAAAA
GCAATGGATCCATTCAATGGTGGAGAAATTTCACCAGGACCAGAAGTGCAAACAGACGAA
GAAATTCTTGATTGGGTTCGTAGAGATGGTGAAACAGCATTACACCCATCTTGTAGTGCT
AAAATGGGTCCTGCTTCAGATCCAATGGCAGTAGTTGACCCGTTAACAATGAAAGTCCAC
GGTATGGAAAATTTACGTGTAGTTGATGCATCAGCTATGCCACGTACGACAAATGGCAAT
ATACACGCACCTGTTTTAATGTTAGCTGAAAAAGCAGCAGACATTATACGTGGCAGAAAG
CCTTTAGAGCCACAATATATTGATTATTATAAGCATGGTGTTCATGATGAAAATGAAGGT
GCAATCGAAGTAAAACCATACGCTAAATAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: SACOL_RS13750 [old locus tag: SACOL2627 ]
- symbol: SACOL_RS13750
- description: oxygen-dependent choline dehydrogenase
- length: 569
- theoretical pI: 7.40617
- theoretical MW: 63609.6
- GRAVY: -0.541476
⊟Function[edit | edit source]
- reaction: EC 1.2.1.8? ExPASyBetaine-aldehyde dehydrogenase Betaine aldehyde + NAD+ + H2O = betaine + NADHEC 1.1.99.1? ExPASyCholine dehydrogenase Choline + acceptor = betaine aldehyde + reduced acceptor
- TIGRFAM: Cellular processes Adaptations to atypical conditions choline dehydrogenase (TIGR01810; EC 1.1.99.1; HMM-score: 934.7)and 10 moredehydrogenase, Rv0697 family (TIGR03970; EC 1.-.-.-; HMM-score: 321.7)Unknown function Enzymes of unknown specificity GMC family mycofactocin-associated oxidreductase (TIGR04542; EC 1.-.-.-; HMM-score: 115.1)Biosynthesis of cofactors, prosthetic groups, and carriers Pyridine nucleotides L-aspartate oxidase (TIGR00551; EC 1.4.3.16; HMM-score: 17.4)Unknown function Enzymes of unknown specificity putative bacillithiol system oxidoreductase, YpdA family (TIGR04018; EC 1.8.-.-; HMM-score: 15.3)Biosynthesis of cofactors, prosthetic groups, and carriers Chlorophyll and bacteriochlorphyll geranylgeranyl reductase family (TIGR02032; EC 1.3.1.-; HMM-score: 14.9)Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides UDP-galactopyranose mutase (TIGR00031; EC 5.4.99.9; HMM-score: 14.8)Unknown function Enzymes of unknown specificity flavoprotein, HI0933 family (TIGR00275; HMM-score: 12.2)Energy metabolism Electron transport flavocytochrome c (TIGR01813; HMM-score: 12.1)dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 11.6)Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family (TIGR01988; EC 1.14.13.-; HMM-score: 11.1)
- TheSEED: see SACOL2627
- PFAM: NADP_Rossmann (CL0063) GMC_oxred_N; GMC oxidoreductase (PF00732; HMM-score: 263.4)and 8 moreno clan defined GMC_oxred_C; GMC oxidoreductase (PF05199; HMM-score: 125.9)NADP_Rossmann (CL0063) Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 30.1)FAD_binding_2; FAD binding domain (PF00890; HMM-score: 25)Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 19.1)DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 17.7)NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 17.3)HI0933_like; HI0933-like protein (PF03486; HMM-score: 14.1)Lycopene_cycl; Lycopene cyclase protein (PF05834; HMM-score: 12.1)
⊟Structure, modifications & cofactors[edit | edit source]
- domains:
- modifications:
- cofactors: FAD
- effectors:
⊟Localization[edit | edit source]
- PSORTb: Cytoplasmic Membrane
- Cytoplasmic Score: 0.17
- Cytoplasmic Membrane Score: 9.51
- Cellwall Score: 0.16
- Extracellular Score: 0.15
- Internal Helices: 0
- LocateP:
- SignalP: no predicted signal peptide
- SP(Sec/SPI): 0.009996
- TAT(Tat/SPI): 0.000463
- LIPO(Sec/SPII): 0.004264
- predicted transmembrane helices (TMHMM): 0
⊟Accession numbers[edit | edit source]
⊟Protein sequence[edit | edit source]
- MSNKNKSYDYVIIGGGSAGSVLGNRLSEDKDKEVLVLEAGRSDYFWDLFIQMPAALMFPSGNKFYDWIYSTDEEPHMGGRKVAHARGKVLGGSSSINGMIYQRGNPMDYEGWAEPEGMETWDFAHCLPYFKKLEKTYGAAPYDKFRGHDGPIKLKRGPATNPLFQSFFDAGVEAGYHKTPDVNGFRQEGFGPFDSQVHRGRRMSASRAYLHPAMKRKNLTVETRAFVTEIHYEGRRATGVTYKKNGKLHTIDANEVILSGGAFNTPQLLQLSGIGDSEFLKSKGIEPRVHLPGVGENFEDHLEVYIQHKCKEPVSLQPSLDIKRMPFIGLQWIFTRTGAAASNHFEGGGFVRSNNEVDYPNLMFHFLPIAVRYDGQKAAVAHGYQVHVGPMYSNSRGSLKIKSKDPFEKPSIRFNYLSTEEDKKEWVEAIRVARNILSQKAMDPFNGGEISPGPEVQTDEEILDWVRRDGETALHPSCSAKMGPASDPMAVVDPLTMKVHGMENLRVVDASAMPRTTNGNIHAPVLMLAEKAADIIRGRKPLEPQYIDYYKHGVHDENEGAIEVKPYAK
⊟Experimental data[edit | edit source]
- experimentally validated: see SACOL2627
- protein localization: see SACOL2627
- quantitative data / protein copy number per cell:
- interaction partners:
SACOL_RS11135 (deoA) pyrimidine-nucleoside phosphorylase [1] (data from MRSA252) SACOL_RS01040 formate acetyltransferase [1] (data from MRSA252) SACOL_RS02850 cysteine synthase [1] (data from MRSA252) SACOL_RS03030 50S ribosomal protein L1 [1] (data from MRSA252) SACOL_RS03035 50S ribosomal protein L10 [1] (data from MRSA252) SACOL_RS03075 elongation factor G [1] (data from MRSA252) SACOL_RS03080 elongation factor Tu [1] (data from MRSA252) SACOL_RS03755 LysR family transcriptional regulator [1] (data from MRSA252) SACOL_RS04330 enolase [1] (data from MRSA252) SACOL_RS04840 NADH dehydrogenase [1] (data from MRSA252) SACOL_RS04980 hypothetical protein [1] (data from MRSA252) SACOL_RS05630 pyruvate dehydrogenase E1 component subunit alpha [1] (data from MRSA252) SACOL_RS05635 pyruvate dehydrogenase E1 component subunit beta [1] (data from MRSA252) SACOL_RS05640 dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [1] (data from MRSA252) SACOL_RS05645 dihydrolipoyl dehydrogenase [1] (data from MRSA252) SACOL_RS06140 cell division protein FtsZ [1] (data from MRSA252) SACOL_RS06420 50S ribosomal protein L19 [1] (data from MRSA252) SACOL_RS06575 translation initiation factor IF-2 [1] (data from MRSA252) SACOL_RS07385 dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [1] (data from MRSA252) SACOL_RS07525 serine/threonine dehydratase [1] (data from MRSA252) SACOL_RS08680 50S ribosomal protein L21 [1] (data from MRSA252) SACOL_RS08905 isocitrate dehydrogenase (NADP(+)) [1] (data from MRSA252) SACOL_RS08930 pyruvate kinase [1] (data from MRSA252) SACOL_RS08995 universal stress protein UspA [1] (data from MRSA252) SACOL_RS10045 glutamate-1-semialdehyde 2,1-aminomutase [1] (data from MRSA252) SACOL_RS11435 Asp23/Gls24 family envelope stress response protein [1] (data from MRSA252) SACOL_RS11695 30S ribosomal protein S5 [1] (data from MRSA252) SACOL_RS11705 50S ribosomal protein L6 [1] (data from MRSA252) SACOL_RS11750 30S ribosomal protein S3 [1] (data from MRSA252) SACOL_RS11780 50S ribosomal protein L3 [1] (data from MRSA252) SACOL_RS13915 arginine deiminase [1] (data from MRSA252)
⊟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.
⊟Literature[edit | edit source]
⊟References[edit | edit source]
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 1.26 1.27 1.28 1.29 1.30 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)