ViewGene
Locus Name:
GeneID:
Location:

GeneID:5274
TrivialName: PA14_60400
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_60400
PAO1 Ortholog Locus:PA4563
Sequence Length:276
Protein Length:91
Start: 5385127
Stop: 5385402
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07951.1|AE004870_2 (AE004870) 30S ribosomal protein S20 [Pseudomonas aeruginosa PAO1]
Identities = 91/91 (100%), Positives = 91/91 (100%)
Sequence:
GTGGCCAACACACCTTCCGCCAAAAAACGCGCCAAACAGGCTGAGAAGCGTCGCAGCCACAACGCCAGCCTG
CGCTCCATGGTGCGCACCTACATCAAGAACGTCGTGAAAGCCATCGACGCCAAGGACCTGGAAAAAGCCCAG
GCCGCCTTCACCGCCGCTGTACCGGTGATCGACCGCATGGCTGACAAAGGCATCATCCACAAGAACAAGGCT
GCTCGTCACAAGAGCCGTCTGAGCGGCCACATCAAGGCCCTCAGCACCGCTGCCGCCTAA
Translation:
MANTPSAKKRAKQAEKRRSHNASLRSMVRTYIKNVVKAIDAKDLEKAQAAFTAAVPVIDRMADKGIIHKNKA
ARHKSRLSGHIKALSTAAA*
AnnotationID:5279GeneID:5274
AnnotatorUID: diggins
Modification Date/Time: 2005-05-05 07:07:03
Gene Name:rpsT
Confidence Code:2
GeneProduct:ribosomal protein S20
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0268,pfam01649
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54344.1| (AE016858) ribosomal protein S20 [Pseudomonas syringae pv. tomato
          str. DC3000]
          Length = 92

 Score =  163 bits (412), Expect = 2e-40
 Identities = 84/91 (92%), Positives = 86/91 (94%)


>gb|AAN78527.1|AE016755_27 (AE016755) 30S ribosomal protein S20 [Escherichia coli CFT073]
          Length = 87

 Score =  101 bits (251), Expect = 1e-21
 Identities = 52/87 (59%), Positives = 62/87 (71%)






 
Structural Features:
COG0268, RpsT, Ribosomal protein S20 
[Translation, ribosomal structure and biogenesis]
CD-Length = 88 residues, 100.0% aligned
Score = 69.2 bits (169), Expect = 2e-13
Identities = 49/88 (55%), Positives = 60/88 (68%)

pfam01649, Ribosomal_S20p, Ribosomal protein S20. 
Bacterial ribosomal protein S20 interacts with 16S rRNA.
CD-Length = 84 residues,  98.8% aligned
Score = 58.9 bits (142), Expect = 2e-10
Identities = 42/83 (50%), Positives = 53/83 (63%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15292




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27694




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31650




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5274_cdd.html


    		




 
URL:

















    ReferenceID:33038




  
Author/Investigator(s):
        Ryden-Aulin M, Shaoping Z, Kylsten P, Isaksson LA.





  
Title:
        Ribosome activity and modification of 16S RNA are influenced by deletion of ribosomal protein S20.




  
PubMed:
        7683367


MedLine:
        




    
Source:
Mol Microbiol. 1993 Mar;7(6):983-92.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7683367

















    ReferenceID:33039




  
Author/Investigator(s):
        Kamio Y, Lin CK, Regue M, Wu HC.





  
Title:
        Characterization of the ileS-lsp operon in Escherichia coli. Identification of an open reading frame upstream of the ileS gene and potential promoter(s) for the ileS-lsp operon.




  
PubMed:
        2985604


MedLine:
        




    
Source:
J Biol Chem. 1985 May 10;260(9):5616-20.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2985604

















    ReferenceID:33040




  
Author/Investigator(s):
        Yamada H, Kitagawa M, Kawakami M, Mizushima S.





  
Title:
        The gene coding for lipoprotein signal peptidase (lspA) and that for isoleucyl-tRNA synthetase (ileS) constitute a cotranscriptional unit in Escherichia coli.




  
PubMed:
        6373377


MedLine:
        




    
Source:
FEBS Lett. 1984 Jun 11;171(2):245-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6373377

















    ReferenceID:33041




  
Author/Investigator(s):
        Mackie GA, Parsons GD.





  
Title:
        Tandem promoters in the gene for ribosomal protein S20.




  
PubMed:
        6305958


MedLine:
        




    
Source:
J Biol Chem. 1983 Jun 25;258(12):7840-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6305958

















    ReferenceID:33042




  
Author/Investigator(s):
        Parsons GD, Mackie GA.





  
Title:
        Expression of the gene for ribosomal protein S20: effects of gene dosage.




  
PubMed:
        6187728


MedLine:
        




    
Source:
J Bacteriol. 1983 Apr;154(1):152-60.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6187728

















    ReferenceID:33043




  
Author/Investigator(s):
        Yamagata H, Taguchi N, Daishima K, Mizushima S.





  
Title:
        Genetic characterization of a gene for prolipoprotein signal peptidase in Escherichia coli.




  
PubMed:
        6227793


MedLine:
        




    
Source:
Mol Gen Genet. 1983;192(1-2):10-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6227793

















    ReferenceID:33044




  
Author/Investigator(s):
        Buckel P.





  
Title:
        Identity of a gene responsible for suppression of aminoacyl-tRNA synthetase mutations with rpsT, the structural gene for ribosomal protein S20.




  
PubMed:
        796681


MedLine:
        




    
Source:
Mol Gen Genet. 1976 Dec 8;149(2):225-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=796681

















    ReferenceID:33045




  
Author/Investigator(s):
        Friesen JD, Parker J, Watson RJ, Fiil NP, Pedersen S.





  
Title:
        Isolation of transducing phage carrying rps T, the structural gene for ribosomal protein S20.




  
PubMed:
        772410


MedLine:
        




    
Source:
Mol Gen Genet. 1976 Feb 27;144(1):115-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=772410









           
Homologs By Global Alignment 

           

       



     
Gene ID:5274
           
Identity:

                               
                                   0%
                               
                                   10%
                               
                                   20%
                               
                                   30%
                               
                                   40%
                               
                                   50%
                               
                                   60%
                               
                                   70%
                               
                                   80%
                               
                                   90%
                               
                                   100%
                               
                             

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7676
                           PA4563_tr
                           translation of PA4563
                           91
                           99.99
                           99.99
                           0
                           442.0
     

     
     
195478
                           gb|AAG07951.1|AE004870_2
                           (AE004870) 30S ribosomal protein S20 [Pseudomonas aeruginosa PAO1]
                           91
                           98.90
                           99.99
                           0
                           439.0
     

     
     
195479
                           gb|AAO54344.1|
                           (AE016858) ribosomal protein S20 [Pseudomonas syringae pv. tomato str. DC3000]
                           92
                           90.21
                           93.47
                           1
                           408.0
     

     
     
195480
                           gb|AAN66226.1|AE016251_2
                           (AE016776) ribosomal protein S20 [Pseudomonas putida KT2440]
                           92
                           89.13
                           92.39
                           1
                           404.0
     

     
     
195481
                           dbj|BAC58794.1|
                           (AP005074) ribosomal protein S20 [Vibrio parahaemolyticus]
                           91
                           63.73
                           73.62
                           5
                           287.0
     

     






      

          
GC ORFID: 48276How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4563Glimmer Score: 

          
Start: 4648806Stop: 4649081

          
Length: 276


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4563 translation of PA4563Homolog Bit Score 174.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3565 (ORF: BLASTX 162.0), t_PA4563 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGCCAACACACCTTCCGCCAAAAAACGCGCCAAACAGGCTGAGAAGCGTCGCAGCCACAACGCCAGCCTG 
CGCTCCATGGTGCGCACCTACATCAAGAACGTCGTGAAAGCCATCGACGCCAAGGACCTGGAAAAAGCCCAG 
GCCGCCTTCACCGCCGCTGTACCGGTGATCGACCGCATGGCTGACAAAGGCATCATCCACAAGAACAAGGCT 
GCTCGTCACAAGAGCCGTCTGAGCGGCCACATCAAGGCCCTCAGCACCGCTGCCGCCTAA