Jump to navigation
Jump to search
m (Text replacement - "<protect> =Summary= * <aureodatabase>organism" to "<protect> <aureodatabase>NCBI date</aureodatabase> =Summary= * <aureodatabase>organism") |
m (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "") |
||
(One intermediate revision by the same user not shown) | |||
Line 1: | Line 1: | ||
__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> | ||
Line 24: | Line 25: | ||
==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> | ||
Line 38: | Line 40: | ||
==Accession numbers== | ==Accession numbers== | ||
* <aureodatabase>gene GI</aureodatabase> | *<aureodatabase>gene GI</aureodatabase> | ||
* <aureodatabase>gene | *<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> | ||
Line 71: | Line 78: | ||
==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> | ||
Line 90: | Line 97: | ||
==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> | ||
Line 99: | Line 106: | ||
==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> | ||
Line 108: | Line 114: | ||
==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> | ||
Line 125: | Line 134: | ||
==Operon== | ==Operon== | ||
* <aureodatabase>operons</aureodatabase> | *<aureodatabase>operons</aureodatabase> | ||
</protect> | </protect> | ||
Line 131: | Line 140: | ||
==Regulation== | ==Regulation== | ||
*<aureodatabase>regulators</aureodatabase> | |||
* <aureodatabase>regulators</aureodatabase> | |||
</protect> | </protect> | ||
Line 138: | Line 146: | ||
==Transcription pattern== | ==Transcription pattern== | ||
* <aureodatabase>expression browser</aureodatabase> | *<aureodatabase>expression browser</aureodatabase> | ||
</protect> | </protect> | ||
Line 144: | Line 152: | ||
==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 12:05, 11 March 2016
NCBI: 10-JUN-2013
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus USA300_FPR3757
- locus tag: SAUSA300_1976 [new locus tag: SAUSA300_RS10855 ]
- pan locus tag?: SAUPAN005193000
- symbol: SAUSA300_1976
- pan gene symbol?: —
- synonym:
- product: succinyl-diaminopimelate desuccinylase
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: SAUSA300_1976 [new locus tag: SAUSA300_RS10855 ]
- symbol: SAUSA300_1976
- product: succinyl-diaminopimelate desuccinylase
- replicon: chromosome
- strand: +
- coordinates: 2131296..2132519
- length: 1224
- essential: unknown other strains
⊟Accession numbers[edit | edit source]
- Gene ID: 3913601 NCBI
- RefSeq: YP_494627 NCBI
- BioCyc: see SAUSA300_RS10855
- MicrobesOnline: 1293491 MicrobesOnline
⊟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
1201ATGACAACTTTTAGTGAAAAAGAAAAAATTCAATTACTAGCAGATATTGTTGAACTACAA
ACTGAAAATAATAATGAAATAGACGTTTGTAATTATTTAACAGATTTATTCGACAAGTAC
GATATTAAATCTGAAATTTTGAAAGTTAATGAACACCGCGCCAATATCGTTGCAGAAATC
GGTAACGGCTCACCTATACTCGCATTGAGTGGTCATATGGATGTTGTTGATGCAGGAAAT
CAAGATAATTGGTCATATCCCCCTTTTCAACTGACAGAAAAAGATGGCAAATTATATGGC
CGAGGCACTACAGATATGAAAGGCGGTTTAATGGCTTTGGTCGTATCTCTAATCGAATTA
AAAGAACAAAATGAATTGCCTCATGGAACGATTAGATTACTGGCTACTGCTGGCGAAGAG
AAAGAACAAGAAGGTGCCAAATTATTAGCTGATAAAGGCTATTTAGACGATGTCGATAGC
TTAATTATTGCTGAACCAACTGGATCTGGAATTTATTATGCACATAAGGGGTCTATGTCA
TGTAAAGTAACTGCAACTGGTAAAGCTGTCCATAGCTCAGTTCCATTTATTGGTGACAAT
GCAATTGATACACTGCTTGAATTTTATAATCTATTTAAAGAAAAATATTCAGAGCTTAAA
CAACAAGATACTAAACATGAATTAGATGTTGCGCCTATGTTCAAATCATTGATTGGAAAA
GAAATTTCTGAAGAGGATGCAAATTATGCATCTGGTCTTACAGCTGTATGTTCGATTATA
AATGGCGGCAAACAATTTAACTCTGTACCAGATGAAGCTTCACTTGAATTTAACGTAAGA
CCAGTTCCTGAGTATGATAACGACTTTATAGAATCGTTTTTCCAAAATATCATTAATGAT
GTGGATAGCAATAAGCTTTCACTCGATATTCCAAGCAATCACCGACCTGTAACAAGCGAT
AAAAATAGCAAATTAATTACTACGATTAAAGATGTAGCTTCTAGTTATGTAGAACAAGAC
GAAATATTTGTTTCAGCGCTTGTAGGTGCAACAGATGCCTCTAGTTTCTTAGGAGATAAT
AAGGACAATGTTGATTTAGCCATTTTTGGACCAGGTAATCCATTAATGGCACATCAAATC
GATGAATATATTGAAAAAGATATGTATCTGAAATATATTGATATTTTTAAAGAGGCTTCC
ATTCAATATTTAAAAGAAAAATAA60
120
180
240
300
360
420
480
540
600
660
720
780
840
900
960
1020
1080
1140
1200
1224
⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: SAUSA300_1976 [new locus tag: SAUSA300_RS10855 ]
- symbol: SAUSA300_1976
- description: succinyl-diaminopimelate desuccinylase
- length: 407
- theoretical pI: 4.27856
- theoretical MW: 45127.3
- GRAVY: -0.330958
⊟Function[edit | edit source]
- TIGRFAM: Protein fate Degradation of proteins, peptides, and glycopeptides peptidase, ArgE/DapE family (TIGR01910; EC 3.4.-.-; HMM-score: 300)and 11 moreAmino acid biosynthesis Glutamate family acetylornithine deacetylase (ArgE) (TIGR01892; EC 3.5.1.16; HMM-score: 167.8)Amino acid biosynthesis Aspartate family succinyl-diaminopimelate desuccinylase (TIGR01246; EC 3.5.1.18; HMM-score: 135.4)Amino acid biosynthesis Aspartate family succinyl-diaminopimelate desuccinylase (TIGR01900; EC 3.5.1.18; HMM-score: 123)putative selenium metabolism hydrolase (TIGR03526; HMM-score: 115.1)N-acetyl-ornithine/N-acetyl-lysine deacetylase (TIGR01902; HMM-score: 101.1)putative dipeptidase (TIGR01887; EC 3.4.13.-; HMM-score: 95.7)N-acyl-L-amino-acid amidohydrolase (TIGR01880; EC 3.5.1.14; HMM-score: 78)Protein fate Degradation of proteins, peptides, and glycopeptides amidohydrolase (TIGR01891; HMM-score: 76)Protein fate Degradation of proteins, peptides, and glycopeptides dipeptidase PepV (TIGR01886; EC 3.4.13.-; HMM-score: 51.9)peptidase T-like protein (TIGR01883; HMM-score: 30.1)Xaa-His dipeptidase (TIGR01893; EC 3.4.13.20; HMM-score: 29.5)
- TheSEED :
- Acetylornithine deacetylase (EC 3.5.1.16)
- PFAM: Peptidase_MH (CL0035) Peptidase_M20; Peptidase family M20/M25/M40 (PF01546; HMM-score: 136.5)and 2 moreno clan defined M20_dimer; Peptidase dimerisation domain (PF07687; HMM-score: 81.4)Peptidase_MH (CL0035) Peptidase_M28; Peptidase family M28 (PF04389; HMM-score: 22)
⊟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 Helices: 0
- LocateP: Intracellular
- Prediction by SwissProt Classification: Cytoplasmic
- Pathway Prediction: No pathway
- Intracellular possibility: 1
- Signal peptide possibility: -1
- N-terminally Anchored Score: 1
- Predicted Cleavage Site: No CleavageSite
- SignalP: no predicted signal peptide
- SP(Sec/SPI): 0.003302
- TAT(Tat/SPI): 0.000133
- LIPO(Sec/SPII): 0.000511
- predicted transmembrane helices (TMHMM): 0
⊟Accession numbers[edit | edit source]
⊟Protein sequence[edit | edit source]
- MTTFSEKEKIQLLADIVELQTENNNEIDVCNYLTDLFDKYDIKSEILKVNEHRANIVAEIGNGSPILALSGHMDVVDAGNQDNWSYPPFQLTEKDGKLYGRGTTDMKGGLMALVVSLIELKEQNELPHGTIRLLATAGEEKEQEGAKLLADKGYLDDVDSLIIAEPTGSGIYYAHKGSMSCKVTATGKAVHSSVPFIGDNAIDTLLEFYNLFKEKYSELKQQDTKHELDVAPMFKSLIGKEISEEDANYASGLTAVCSIINGGKQFNSVPDEASLEFNVRPVPEYDNDFIESFFQNIINDVDSNKLSLDIPSNHRPVTSDKNSKLITTIKDVASSYVEQDEIFVSALVGATDASSFLGDNKDNVDLAIFGPGNPLMAHQIDEYIEKDMYLKYIDIFKEASIQYLKEK
⊟Experimental data[edit | edit source]
- experimentally validated: data available for NCTC8325
- protein localization:
- quantitative data / protein copy number per cell:
- interaction partners:
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
- MicrobesOnline: no polycistronic organisation predicted
⊟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.