ViewGene
Locus Name:
GeneID:
Location:

GeneID:4837
TrivialName: PA14_08790
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08790
PAO1 Ortholog Locus:PA4268
Sequence Length:372
Protein Length:123
Start: 754693
Stop: 755064
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07656.1|AE004842_5 (AE004842) 30S ribosomal protein S12 [Pseudomonas aeruginosa PAO1]
Identities = 123/123 (100%), Positives = 123/123 (100%)
Sequence:
ATGGCAACTATCAACCAGCTGGTGCGTAAGCCGCGCAAGCGCATGGTCGACAAGAGCGACGTGCCTGCGCTG
CAAAACTGCCCGCAACGTCGTGGCGTATGCACCCGCGTATACACCACCACGCCGAAAAAGCCGAACTCGGCA
CTGCGTAAGGTATGCCGTGTACGTCTGACCAACGGTTTCGAGGTTTCCTCGTACATCGGTGGTGAAGGTCAC
AACCTGCAAGAGCACAGCGTAGTGCTGATCCGTGGCGGTCGTGTAAAGGACCTTCCGGGTGTGCGTTACCAC
ACCGTGCGCGGTTCGCTGGACACCTCGGGTGTCAAAGACCGTAAGCAGGGTCGTTCGAAGTACGGCGCCAAG
CGTCCGAAGTAA
Translation:
MATINQLVRKPRKRMVDKSDVPALQNCPQRRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVSSYIGGEGH
NLQEHSVVLIRGGRVKDLPGVRYHTVRGSLDTSGVKDRKQGRSKYGAKRPK*
AnnotationID:4842GeneID:4837
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 17:05:23
Gene Name:rpsL
Confidence Code:2
GeneProduct:30S ribosomal protein S12
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:pfam00164
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66079.1|AE016237_3 (AE016775) ribosomal protein S12 [Pseudomonas putida KT2440]
          Length = 123

 Score =  241 bits (614), Expect = 7e-64
 Identities = 117/123 (95%), Positives = 119/123 (96%)

>gb|AAO54163.1| (AE016858) ribosomal protein S12 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 123

 Score =  240 bits (613), Expect = 9e-64
 Identities = 116/123 (94%), Positives = 120/123 (97%)

>gb|AAP19354.1| (AE016992) 30S ribosomal subunit protein S12 [Shigella flexneri 2a
           str. 2457T]
          Length = 124

 Score =  228 bits (581), Expect = 5e-60
 Identities = 109/123 (88%), Positives = 116/123 (94%)








 
Structural Features:
pfam00164, Ribosomal_S12, Ribosomal protein S12.
CD-Length = 124 residues,  99.2% aligned
Score =  162 bits (411), Expect = 1e-41
Identities = 84/123 (68%), Positives = 97/123 (78%), Gaps = 2/123 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9674




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26815




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36637




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4837_cdd.html


    		




 
URL:

















    ReferenceID:36765




  
Author/Investigator(s):
        Kenney TJ, Churchward G.





  
Title:
        Cloning and sequence analysis of the rpsL and rpsG genes of Mycobacterium smegmatis and characterization of mutations causing resistance to streptomycin.




  
PubMed:
        7928982


MedLine:
        




    
Source:
J Bacteriol. 1994 Oct;176(19):6153-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7928982

















    ReferenceID:36767




  
Author/Investigator(s):
        Nashimoto H, Uchida H.





  
Title:
        DNA sequencing of the Escherichia coli ribonuclease III gene and its mutations.




  
PubMed:
        3903434


MedLine:
        




    
Source:
Mol Gen Genet. 1985;201(1):25-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3903434

















    ReferenceID:36768




  
Author/Investigator(s):
        Post LE, Nomura M.





  
Title:
        DNA sequences from the str operon of Escherichia coli.




  
PubMed:
        6989816


MedLine:
        




    
Source:
J Biol Chem. 1980 May 25;255(10):4660-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=80182129&dopt=Abstract

















    ReferenceID:36769




  
Author/Investigator(s):
        Hughes D, Buckingham RH.





  
Title:
        The nucleotide sequence of rpsL and its flanking regions in Salmonella typhimurium.




  
PubMed:
        1916272


MedLine:
        




    
Source:
Gene. 1991 Jul 31;104(1):123-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=92009189&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:4837
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7215
                           PA4268_tr
                           translation of PA4268
                           123
                           99.99
                           99.99
                           0
                           644.0
     

     
     
188537
                           gb|AAG07656.1|AE004842_5
                           (AE004842) 30S ribosomal protein S12 [Pseudomonas aeruginosa PAO1]
                           123
                           99.99
                           99.99
                           0
                           644.0
     

     
     
188538
                           gb|AAN66079.1|AE016237_3
                           (AE016775) ribosomal protein S12 [Pseudomonas putida KT2440]
                           123
                           95.12
                           96.74
                           0
                           614.0
     

     
     
188539
                           gb|AAO54163.1|
                           (AE016858) ribosomal protein S12 [Pseudomonas syringae pv. tomato str. DC3000]
                           123
                           94.30
                           97.56
                           0
                           613.0
     

     
     
188552
                           gb|AAA58139.1|
                           (U18997) 30S ribosomal subunit protein S12 [Escherichia coli]
                           124
                           87.90
                           93.54
                           1
                           581.0
     

     






      

          
GC ORFID: 47839How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4268Glimmer Score: 

          
Start: 4199246Stop: 4198875

          
Length: 372


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4268 translation of PA4268Homolog Bit Score 252.0

          
Other Homologs:  t_PA4268 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCAACTATCAACCAGCTGGTGCGTAAGCCGCGCAAGCGCATGGTCGACAAGAGCGACGTGCCTGCGCTG 
CAAAACTGCCCGCAACGTCGTGGCGTATGCACCCGCGTATACACCACCACGCCGAAAAAGCCGAACTCGGCA 
CTGCGTAAGGTATGCCGTGTACGTCTGACCAACGGTTTCGAGGTTTCCTCGTACATCGGTGGTGAAGGTCAC 
AACCTGCAAGAGCACAGCGTAGTGCTGATCCGTGGCGGTCGTGTAAAGGACCTTCCGGGTGTGCGTTACCAC 
ACCGTGCGCGGTTCGCTGGACACCTCGGGTGTCAAAGACCGTAAGCAGGGTCGTTCGAAGTACGGCGCCAAG 
CGTCCGAAGTAA