ViewGene
Locus Name:
GeneID:
Location:

GeneID:3485
TrivialName: PA14_08910
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08910
PAO1 Ortholog Locus:PA4257
Sequence Length:687
Protein Length:228
Start: 762589
Stop: 763275
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07645.1|AE004841_23 (AE004841) 30S ribosomal protein S3 [Pseudomonas aeruginosa PAO1]
Identities = 228/228 (100%), Positives = 228/228 (100%)
Sequence:
ATGGGTCAGAAAGTACATCCCAATGGCATTCGCCTGGGTATCGTCAAGGAGCACACCTCCGTTTGGTACGCA
GACCGCAAGAACTATGCGGATTACCTGTTTGCCGACCTGAAGGTGCGTGAGTACCTCCAAGACAAACTAAAA
AGCGCGTCCGTAAGCCGTATCGATATTCATCGTCCGGCTCAAACCGCACGCATCACCATCCACACCGCTCGT
CCCGGCATCGTGATCGGCAAGAAAGGTGAAGATGTTGAGAAACTGCGCCAGGACCTGACCAAGCAAATGGGT
GTGCCCGTGCACATCAACATCGAGGAAATCCGCAAGCCGGAACTCGATGCCATGCTGGTTGCGCAGAGCGTA
GCCCAGCAGCTGGAGCGTCGCGTAATGTTCCGTCGCGCCATGAAGCGCGCCGTACAGAACGCCATGCGCATT
GGTGCCAAGGGCATCAAGATTCAGGTCAGCGGTCGTCTGGGTGGGGCTGAAATCGCCCGTACCGAATGGTAT
CGCGAAGGTCGTGTGCCCCTGCACACCCTGCGCGCCGATATCGACTATGCCACCTACGAAGCGCACACCACT
TACGGTGTGATCGGTGTCAAGGTTTGGATCTTCAAGGGCGAGGTCATCGGTGGCCGCCAGGAAGAGCTGAAG
CCGGTTGCACCCGCTCCTCGTAAAAAAGCTGCTAGGTAA
Translation:
MGQKVHPNGIRLGIVKEHTSVWYADRKNYADYLFADLKVREYLQDKLKSASVSRIDIHRPAQTARITIHTAR
PGIVIGKKGEDVEKLRQDLTKQMGVPVHINIEEIRKPELDAMLVAQSVAQQLERRVMFRRAMKRAVQNAMRI
GAKGIKIQVSGRLGGAEIARTEWYREGRVPLHTLRADIDYATYEAHTTYGVIGVKVWIFKGEVIGGRQEELK
PVAPAPRKKAAR*
AnnotationID:3493GeneID:3485
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 11:11:36
Gene Name:rpsC
Confidence Code:2
GeneProduct:30S ribosomal protein S3
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:COG0092,pfam00189
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54174.1| (AE016858) ribosomal protein S3 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 228

 Score =  437 bits (1123), Expect = e-122
 Identities = 220/228 (96%), Positives = 222/228 (97%)

>gb|AAN66090.1|AE016238_8 (AE016775) ribosomal protein S3 [Pseudomonas putida KT2440]
          Length = 237

 Score =  432 bits (1111), Expect = e-121
 Identities = 218/228 (95%), Positives = 219/228 (96%)

>gb|AAL22297.1| (AE008858) 30S ribosomal subunit protein S3 [Salmonella typhimurium
           LT2]
          Length = 233

 Score =  330 bits (847), Expect = 3e-90
 Identities = 166/225 (73%), Positives = 186/225 (82%)






 
Structural Features:
COG0092, RpsC, Ribosomal protein S3 
[Translation, ribosomal structure and biogenesis]
CD-Length = 233 residues,  93.6% aligned
Score =  286 bits (734), Expect = 1e-78
Identities = 141/218 (64%), Positives = 171/218 (78%), Gaps = 1/218 (0%)

pfam00189, Ribosomal_S3_C, Ribosomal protein S3, C-terminal domain.
CD-Length = 84 residues, 100.0% aligned
Score =  138 bits (349), Expect = 6e-34
Identities = 69/84 (82%), Positives = 75/84 (89%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6973




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24115




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36539




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3485_cdd.html


    		




 
URL:

















    ReferenceID:36735




  
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:36745




  
Author/Investigator(s):
        Brauer D, Roming R.





  
Title:
        The primary structure of protein S3 from the small ribosomal subunit of Escherichia coli.




  
PubMed:
        387449


MedLine:
        




    
Source:
FEBS Lett. 1979 Oct 15;106(2):352-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=80047253&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:3485
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5552
                           PA4257_tr
                           translation of PA4257
                           228
                           99.99
                           99.99
                           0
                           1166.0
     

     
     
154584
                           gb|AAG07645.1|AE004841_23
                           (AE004841) 30S ribosomal protein S3 [Pseudomonas aeruginosa PAO1]
                           228
                           99.99
                           99.99
                           0
                           1166.0
     

     
     
154585
                           gb|AAO54174.1|
                           (AE016858) ribosomal protein S3 [Pseudomonas syringae pv. tomato str. DC3000]
                           228
                           96.49
                           97.36
                           0
                           1123.0
     

     
     
154586
                           gb|AAN66090.1|AE016238_8
                           (AE016775) ribosomal protein S3 [Pseudomonas putida KT2440]
                           237
                           91.98
                           92.40
                           9
                           1111.0
     

     
     
154597
                           emb|CAC89075.1|
                           (AJ414141) 30S ribosomal protein S3 [Yersinia pestis CO92]
                           232
                           71.98
                           80.17
                           4
                           845.0
     

     






      

          
GC ORFID: 46487How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4257Glimmer Score: 

          
Start: 4191350Stop: 4190664

          
Length: 687


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4257 translation of PA4257Homolog Bit Score 453.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5191 (ORF: BLASTX 437.0), t_PA4257 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGGTCAGAAAGTACATCCCAATGGCATTCGCCTGGGTATCGTCAAGGAGCACACCTCCGTTTGGTACGCA 
GACCGCAAGAACTATGCGGATTACCTGTTTGCCGACCTGAAGGTGCGTGAGTACCTCCAAGACAAACTAAAA 
AGCGCGTCCGTAAGCCGTATCGATATTCATCGTCCGGCTCAAACCGCACGCATCACCATCCACACCGCTCGT 
CCCGGCATCGTGATCGGCAAGAAAGGTGAAGATGTTGAGAAACTGCGCCAGGACCTGACCAAGCAAATGGGT 
GTGCCCGTGCACATCAACATCGAGGAAATCCGCAAGCCGGAACTCGATGCCATGCTGGTTGCGCAGAGCGTA 
GCCCAGCAGCTGGAGCGTCGCGTAATGTTCCGTCGCGCCATGAAGCGCGCCGTACAGAACGCCATGCGCATT 
GGTGCCAAGGGCATCAAGATTCAGGTCAGCGGTCGTCTGGGTGGGGCTGAAATCGCCCGTACCGAATGGTAT 
CGCGAAGGTCGTGTGCCCCTGCACACCCTGCGCGCCGATATCGACTATGCCACCTACGAAGCGCACACCACT 
TACGGTGTGATCGGTGTCAAGGTTTGGATCTTCAAGGGCGAGGTCATCGGTGGCCGCCAGGAAGAGCTGAAG 
CCGGTTGCACCCGCTCCTCGTAAAAAAGCTGCTAGGTAA