ViewGene
Locus Name:
GeneID:
Location:

GeneID:5399
TrivialName: PA14_07560
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_07560
PAO1 Ortholog Locus:PA0579
Sequence Length:216
Protein Length:71
Start: 651935
Stop: 651720
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03968.1|AE004494_4 (AE004494) 30S ribosomal protein S21 [Pseudomonas aeruginosa PAO1]
Identities = 71/71 (100%), Positives = 71/71 (100%)
Sequence:
ATGCCAGCCGTCAAAGTAAAAGAGAACGAACCCTTCGACGTAGCCCTGCGTCGTTTCAAGCGCTCCTGCGAA
AAAGCAGGTGTACTGGCTGAAGTTCGCAGCCGCGAGTTCTACGAGAAGCCCACTGCCGAGCGCAAGCGCAAG
GCCGCTGCCGCAGTGAAGCGCCACGCGAAGAAAGTACAGCGCGAACAGCGCCGTCGCGAGCGCCTGTACTGA
Translation:
MPAVKVKENEPFDVALRRFKRSCEKAGVLAEVRSREFYEKPTAERKRKAAAAVKRHAKKVQREQRRRERLY*
AnnotationID:5404GeneID:5399
AnnotatorUID: diggins
Modification Date/Time: 2005-03-29 08:08:53
Gene Name:rpsU
Confidence Code:2
GeneProduct:30S ribosomal protein S21
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:pfam01165,COG0828
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAC38071.1| (AF014397) 30S subunit ribosomal protein S21 [Pseudomonas putida]
          Length = 71

 Score =  136 bits (343), Expect = 2e-32
 Identities = 69/71 (97%), Positives = 69/71 (97%)

>gb|AAO54081.1| (AE016857) ribosomal protein S21 [Pseudomonas syringae pv. tomato
          str. DC3000]
          Length = 71

 Score =  135 bits (340), Expect = 5e-32
 Identities = 68/71 (95%), Positives = 69/71 (97%)

>gb|AAL22083.1| (AE008847) 30S ribosomal subunit protein S21 [Salmonella
          typhimurium LT2]
          Length = 71

 Score =  119 bits (299), Expect = 3e-27
 Identities = 58/71 (81%), Positives = 62/71 (87%)






 
Structural Features:
pfam01165, Ribosomal_S21, Ribosomal protein S21.
CD-Length = 54 residues, 100.0% aligned
Score = 44.2 bits (104), Expect = 3e-06
Identities = 38/54 (70%), Positives = 44/54 (81%)

COG0828, RpsU, Ribosomal protein S21 
[Translation, ribosomal structure and biogenesis]
CD-Length = 67 residues, 100.0% aligned
Score = 39.9 bits (93), Expect = 6e-05
Identities = 42/67 (62%), Positives = 53/67 (79%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10796




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27945




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33855




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5399_cdd.html


    		




 
URL:

















    ReferenceID:35275




  
Author/Investigator(s):
        Erickson BD, Burton ZF, Watanabe KK, Burgess RR.





  
Title:
        Nucleotide sequence of the rpsU-dnaG-rpoD operon from Salmonella typhimurium and a comparison of this sequence with the homologous operon of Escherichia coli.




  
PubMed:
        3005129


MedLine:
        




    
Source:
Gene. 1985;40(1):67-78.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3005129

















    ReferenceID:35276




  
Author/Investigator(s):
        Burton ZF, Gross CA, Watanabe KK, Burgess RR.





  
Title:
        The operon that encodes the sigma subunit of RNA polymerase also encodes ribosomal protein S21 and DNA primase in E. coli K12.




  
PubMed:
        6186393


MedLine:
        




    
Source:
Cell. 1983 Feb;32(2):335-49.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6186393









           
Homologs By Global Alignment 

           

       



     
Gene ID:5399
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7795
                           PA0579_tr
                           translation of PA0579
                           71
                           99.99
                           99.99
                           0
                           356.0
     

     
     
196427
                           gb|AAG03968.1|AE004494_4
                           (AE004494) 30S ribosomal protein S21 [Pseudomonas aeruginosa PAO1]
                           71
                           99.99
                           99.99
                           0
                           356.0
     

     
     
196428
                           gb|AAN66020.1|AE016231_3
                           (AE016775) ribosomal protein S21 [Pseudomonas putida KT2440]
                           71
                           97.18
                           97.18
                           0
                           343.0
     

     
     
196429
                           gb|AAC38071.1|
                           (AF014397) 30S subunit ribosomal protein S21 [Pseudomonas putida]
                           71
                           97.18
                           97.18
                           0
                           343.0
     

     
     
196430
                           gb|AAO54081.1|
                           (AE016857) ribosomal protein S21 [Pseudomonas syringae pv. tomato str. DC3000]
                           71
                           95.77
                           97.18
                           0
                           340.0
     

     






      

          
GC ORFID: 48401How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0579Glimmer Score: 

          
Start: 6453278Stop: 6453063

          
Length: 216


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0579 translation of PA0579Homolog Bit Score 141.0

          
Other Homologs:  psyr_15may02_Scaffold6_revised_gene6767 (ORF: BLASTX 135.0), t_PA0579 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCCAGCCGTCAAAGTAAAAGAGAACGAACCCTTCGACGTAGCCCTGCGTCGTTTCAAGCGCTCCTGCGAA 
AAAGCAGGTGTACTGGCTGAAGTTCGCAGCCGCGAGTTCTACGAGAAGCCCACTGCCGAGCGCAAGCGCAAG 
GCCGCTGCCGCAGTGAAGCGCCACGCGAAGAAAGTACAGCGCGAACAGCGCCGTCGCGAGCGCCTGTACTGA