ViewGene
Locus Name:
GeneID:
Location:

GeneID:3257
TrivialName: PA14_17060
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_17060
PAO1 Ortholog Locus:PA3656
Sequence Length:741
Protein Length:246
Start: 1463112
Stop: 1463852
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07044.1|AE004785_8 (AE004785) 30S ribosomal protein S2 [Pseudomonas aeruginosa PAO1]
Identities = 246/246 (100%), Positives = 246/246 (100%)
Sequence:
ATGTCCCAAGTCAACATGCGCGATATGCTGAAGGCCGGTGTGCACTTCGGCCACCAGACCCGTTACTGGAAC
CCGAAAATGGGCAAGTTCATTTTCGGCGCGCGCAACAAGATCCATATCATCAACCTCGAAAAGACCCTGCCG
ATGTTCAACGAGGCCCTGACCTTCGTTGAGCGCCTGGCCGCTGGCAAGAACAAGATCCTGTTCGTCGGCACC
AAGCGTTCCGCTGGCAAGATCGTTCGCGAGGAAGCCGCTCGTTGCGGCATGCCGTACGTCGACCATCGCTGG
CTGGGCGGCATGCTCACCAACTACAAGACCATCCGTCAGTCGATCAAGCGCCTGCGCGACCTGGAAACCCAG
TCCCAGGACGGCACCTTCGACAAGCTGACCAAGAAAGAAGCCCTGATGCGCAGCCGTGACCTCGAGAAGCTC
GAGCGCAGCCTGGGCGGCATCAAGGACATGGGCGGCCTGCCGGACGCTCTGTTCGTGATCGACGTCGACCAC
GAGCGCATCGCCATCACCGAAGCCAACAAGCTGGGCATCCCGGTCATCGGCGTTGTCGATACCAACAGCAGC
CCGGAAGGCGTCGACTATGTAATTCCCGGTAACGATGATGCCATCCGCGCCGTGCAACTCTACCTGAACTCG
ATGGCCGAAGCGGTAATCCGCGGCAAGCAGGGCGCTGCCACCAGCGCCGACGAGTTCGTCGAGGAAGCGCCG
GCCGAATCCGCCGAAGGCTGA
Translation:
MSQVNMRDMLKAGVHFGHQTRYWNPKMGKFIFGARNKIHIINLEKTLPMFNEALTFVERLAAGKNKILFVGT
KRSAGKIVREEAARCGMPYVDHRWLGGMLTNYKTIRQSIKRLRDLETQSQDGTFDKLTKKEALMRSRDLEKL
ERSLGGIKDMGGLPDALFVIDVDHERIAITEANKLGIPVIGVVDTNSSPEGVDYVIPGNDDAIRAVQLYLNS
MAEAVIRGKQGAATSADEFVEEAPAESAEG*
AnnotationID:3265GeneID:3257
AnnotatorUID: diggins
Modification Date/Time: 2005-04-21 06:06:02
Gene Name:rpsB
Confidence Code:2
GeneProduct:30S ribosomal subunit protein S2
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:COG0052,pfam00318,KOG0832
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55054.1| (AE016861) ribosomal protein S2 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 247

 Score =  441 bits (1134), Expect = e-123
 Identities = 217/244 (88%), Positives = 231/244 (94%)

>gb|AAN78698.1|AE016755_198 (AE016755) 30S ribosomal protein S2 [Escherichia coli CFT073]
          Length = 307

 Score =  355 bits (911), Expect = 1e-97
 Identities = 176/240 (73%), Positives = 203/240 (84%), Gaps = 1/240 (0%)






 
Structural Features:
COG0052, RpsB, Ribosomal protein S2 
[Translation, ribosomal structure and biogenesis]
CD-Length = 252 residues,  94.0% aligned
Score =  363 bits (934), Expect = 2e-101
Identities = 149/238 (62%), Positives = 183/238 (76%), Gaps = 1/238 (0%)

pfam00318, Ribosomal_S2, Ribosomal protein S2.
CD-Length = 214 residues, 100.0% aligned
Score =  286 bits (734), Expect = 3e-78
Identities = 109/217 (50%), Positives = 140/217 (64%), Gaps = 3/217 (1%)

KOG0832, Mitochondrial/chloroplast ribosomal protein S2 
[Translation, ribosomal structure and biogenesis]
CD-Length = 251 residues,  78.5% aligned
Score =  174 bits (443), Expect = 1e-44
Identities = 78/225 (34%), Positives = 114/225 (50%), Gaps = 28/225 (12%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6517




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23659




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31887




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3257_cdd.html


    		




 
URL:

















    ReferenceID:34229




  
Author/Investigator(s):
        Ohnishi M, Janosi L, Shuda M, Matsumoto H, Hayashi T, Terawaki Y, Kaji A.





  
Title:
        Molecular cloning, sequencing, purification, and characterization of Pseudomonas aeruginosa ribosome recycling factor.




  
PubMed:
        9973356


MedLine:
        




    
Source:
J Bacteriol. 1999 Feb;181(4):1281-91.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9973356

















    ReferenceID:34230




  
Author/Investigator(s):
        Liao X, Charlebois I, Ouellet C, Morency MJ, Dewar K, Lightfoot J, Foster J, Siehnel R, Schweizer H, Lam JS, Hancock RE, Levesque RC.





  
Title:
        Physical mapping of 32 genetic markers on the Pseudomonas aeruginosa PAO1 chromosome.




  
PubMed:
        8581173


MedLine:
        




    
Source:
Microbiology. 1996 Jan;142 ( Pt 1):79-86.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8581173

















    ReferenceID:34231




  
Author/Investigator(s):
        Le Dantec L, Bove JM, Saillard C.





  
Title:
        Gene organization and transcriptional analysis of the Spiroplasma citri rpsB/tsf/x operon.




  
PubMed:
        9732535


MedLine:
        




    
Source:
Curr Microbiol. 1998 Oct;37(4):269-73.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9732535

















    ReferenceID:34232




  
Author/Investigator(s):
        An G, Bendiak DS, Mamelak LA, Friesen JD.





  
Title:
        Organization and nucleotide sequence of a new ribosomal operon in Escherichia coli containing the genes for ribosomal protein S2 and elongation factor Ts.




  
PubMed:
        6272196


MedLine:
        




    
Source:
Nucleic Acids Res. 1981 Aug 25;9(16):4163-72.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6272196









           
Homologs By Global Alignment 

           

       



     
Gene ID:3257
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5235
                           PA3656_tr
                           translation of PA3656
                           246
                           99.99
                           99.99
                           0
                           1258.0
     

     
     
146348
                           gb|AAG07044.1|AE004785_8
                           (AE004785) 30S ribosomal protein S2 [Pseudomonas aeruginosa PAO1]
                           246
                           99.99
                           99.99
                           0
                           1258.0
     

     
     
146350
                           gb|AAO55054.1|
                           (AE016861) ribosomal protein S2 [Pseudomonas syringae pv. tomato str. DC3000]
                           247
                           88.66
                           94.33
                           1
                           1135.0
     

     
     
146351
                           gb|AAN67212.1|AE016348_4
                           (AE016779) ribosomal protein S2 [Pseudomonas putida KT2440]
                           246
                           86.17
                           93.08
                           1
                           1114.0
     

     
     
146349
                           dbj|BAA32342.1|
                           (AB010087) ribosomal protein S2 [Pseudomonas aeruginosa]
                           280
                           82.50
                           83.57
                           34
                           1166.0
     

     






      

          
GC ORFID: 46259How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3656Glimmer Score: 

          
Start: 3490825Stop: 3490085

          
Length: 741


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3656 translation of PA3656Homolog Bit Score 489.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4619 (ORF: BLASTX 439.0), t_PA3656 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCCAAGTCAACATGCGCGATATGCTGAAGGCCGGTGTGCACTTCGGCCACCAGACCCGTTACTGGAAC 
CCGAAAATGGGCAAGTTCATTTTCGGCGCGCGCAACAAGATCCATATCATCAACCTCGAAAAGACCCTGCCG 
ATGTTCAACGAGGCCCTGACCTTCGTTGAGCGCCTGGCCGCTGGCAAGAACAAGATCCTGTTCGTCGGCACC 
AAGCGTTCCGCTGGCAAGATCGTTCGCGAGGAAGCCGCTCGTTGCGGCATGCCGTACGTCGACCATCGCTGG 
CTGGGCGGCATGCTCACCAACTACAAGACCATCCGTCAGTCGATCAAGCGCCTGCGCGACCTGGAAACCCAG 
TCCCAGGACGGCACCTTCGACAAGCTGACCAAGAAAGAAGCCCTGATGCGCAGCCGTGACCTCGAGAAGCTC 
GAGCGCAGCCTGGGCGGCATCAAGGACATGGGCGGCCTGCCGGACGCTCTGTTCGTGATCGACGTCGACCAC 
GAGCGCATCGCCATCACCGAAGCCAACAAGCTGGGCATCCCGGTCATCGGCGTTGTCGATACCAACAGCAGC 
CCGGAAGGCGTCGACTATGTAATTCCCGGTAACGATGATGCCATCCGCGCCGTGCAACTCTACCTGAACTCG 
ATGGCCGAAGCGGTAATCCGCGGCAAGCAGGGCGCTGCCACCAGCGCCGACGAGTTCGTCGAGGAAGCGCCG 
GCCGAATCCGCCGAAGGCTGA