ViewGene
Locus Name:
GeneID:
Location:

GeneID:5133
TrivialName: PA14_08840
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08840
PAO1 Ortholog Locus:PA4264
Sequence Length:312
Protein Length:103
Start: 759165
Stop: 759476
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07652.1|AE004842_1 (AE004842) 30S ribosomal protein S10 [Pseudomonas aeruginosa PAO1]
Identities = 103/103 (100%), Positives = 103/103 (100%)
Sequence:
ATGCAAAACCAACAAATCCGGATTCGGTTGAAGGCTTTTGACCATCGCCTGATCGATCAATCAACCCAGGAA
ATCGTGGAAACCGCGAAACGTACTGGTGCTCAGGTGCGTGGTCCAATCCCTCTGCCGACCCGCAAGGAACGT
TTCACCGTGCTGATCTCTCCGCACGTCAACAAAGATGCGCGTGATCAGTACGAAATTCGTACACATAAGCGT
GTACTGGACATCGTCCAGCCGACGGATAAAACCGTCGATGCGCTGATGAAGCTCGATCTTGCTGCAGGCGTT
GAAGTACAGATCAGCCTCGGCTAA
Translation:
MQNQQIRIRLKAFDHRLIDQSTQEIVETAKRTGAQVRGPIPLPTRKERFTVLISPHVNKDARDQYEIRTHKR
VLDIVQPTDKTVDALMKLDLAAGVEVQISLG*
AnnotationID:5138GeneID:5133
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 16:04:14
Gene Name:rpsJ
Confidence Code:2
GeneProduct:30S ribosomal protein S10
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:COG0051,pfam00338
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66083.1|AE016238_1 (AE016775) ribosomal protein S10 [Pseudomonas putida KT2440]
          Length = 103

 Score =  202 bits (514), Expect = 3e-52
 Identities = 102/103 (99%), Positives = 103/103 (100%)

>gb|AAO54167.1| (AE016858) ribosomal protein S10 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 103

 Score =  201 bits (510), Expect = 9e-52
 Identities = 101/103 (98%), Positives = 103/103 (100%)

>gb|AAL22304.1| (AE008858) 30S ribosomal subunit protein S10 [Salmonella
           typhimurium LT2]
          Length = 103

 Score =  191 bits (486), Expect = 5e-49
 Identities = 95/103 (92%), Positives = 102/103 (99%)






 
Structural Features:
COG0051, RpsJ, Ribosomal protein S10 
[Translation, ribosomal structure and biogenesis]
CD-Length = 104 residues,  98.1% aligned
Score =  149 bits (377), Expect = 8e-38
Identities = 73/102 (71%), Positives = 90/102 (88%)

pfam00338, Ribosomal_S10, Ribosomal protein S10p/S20e.
CD-Length = 96 residues, 100.0% aligned
Score =  126 bits (318), Expect = 6e-31
Identities = 57/96 (59%), Positives = 76/96 (79%)








   
Genomic Context:






   
Comment:


















    ReferenceID:10266




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27410




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36542




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5133_cdd.html


    		




 
URL:

















    ReferenceID:36742




  
Author/Investigator(s):
        Zurawski G, Zurawski SM.





  
Title:
        Structure of the Escherichia coli S10 ribosomal protein operon.




  
PubMed:
        3892488


MedLine:
        




    
Source:
Nucleic Acids Res. 1985 Jun 25;13(12):4521-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3892488

















    ReferenceID:36749




  
Author/Investigator(s):
        Yaguchi M, Roy C, Wittmann HG.





  
Title:
        The primary structure of protein S10 from the small ribosomal subunit of Escherichia coli.




  
PubMed:
        7007073


MedLine:
        




    
Source:
FEBS Lett. 1980 Nov 17;121(1):113-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=81114581&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:5133
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7541
                           PA4264_tr
                           translation of PA4264
                           103
                           99.99
                           99.99
                           0
                           515.0
     

     
     
193722
                           gb|AAG07652.1|AE004842_1
                           (AE004842) 30S ribosomal protein S10 [Pseudomonas aeruginosa PAO1]
                           103
                           99.99
                           99.99
                           0
                           515.0
     

     
     
193723
                           gb|AAN66083.1|AE016238_1
                           (AE016775) ribosomal protein S10 [Pseudomonas putida KT2440]
                           103
                           99.02
                           99.99
                           0
                           514.0
     

     
     
193724
                           gb|AAO54167.1|
                           (AE016858) ribosomal protein S10 [Pseudomonas syringae pv. tomato str. DC3000]
                           103
                           98.05
                           99.99
                           0
                           510.0
     

     
     
193732
                           emb|CAD08172.1|
                           (AL627281) 30S ribosomal subunit protein S10 [Salmonella enterica subsp. enterica serovar Typhi]
                           103
                           92.23
                           99.02
                           0
                           486.0
     

     






      

          
GC ORFID: 48135How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4264Glimmer Score: 

          
Start: 4194774Stop: 4194463

          
Length: 312


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4264 translation of PA4264Homolog Bit Score 202.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5183 (ORF: BLASTX 201.0), t_PA4264 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAAAACCAACAAATCCGGATTCGGTTGAAGGCTTTTGACCATCGCCTGATCGATCAATCAACCCAGGAA 
ATCGTGGAAACCGCGAAACGTACTGGTGCTCAGGTGCGTGGTCCAATCCCTCTGCCGACCCGCAAGGAACGT 
TTCACCGTGCTGATCTCTCCGCACGTCAACAAAGATGCGCGTGATCAGTACGAAATTCGTACACATAAGCGT 
GTACTGGACATCGTCCAGCCGACGGATAAAACCGTCGATGCGCTGATGAAGCTCGATCTTGCTGCAGGCGTT 
GAAGTACAGATCAGCCTCGGCTAA