ViewGene
Locus Name:
GeneID:
Location:

GeneID:5171
TrivialName: PA14_08870
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08870
PAO1 Ortholog Locus:PA4261
Sequence Length:300
Protein Length:99
Start: 760807
Stop: 761106
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07649.1|AE004841_27 (AE004841) 50S ribosomal protein L23 [Pseudomonas aeruginosa PAO1]
Identities = 99/99 (100%), Positives = 99/99 (100%)
Sequence:
ATGAACCAGGAACGCGTATTCAAAGTGCTGCTTGGTCCGCACATCTCCGAGAAAGCCACGGGTCTCGCGGAC
GGCAAGAGCCAATTCGTTTTCAAGGTTGCCACCGATGCAACCAAGCTGGAAATCAAGAAGGCCGTAGAAAGC
CTGTTCAGCGTGAAGGTACAGCGCGTCACTACCCTGAACGTCAAGGGTAAGACCAAGCGCACCGCTCGCGGT
CTGGGCAAGCGTAACGACTGGAAAAAAGCGTACATCGCTCTCCAGCCGGGCCAAGATCTCGATTTCGCCACC
AGCGCTGAGTAA
Translation:
MNQERVFKVLLGPHISEKATGLADGKSQFVFKVATDATKLEIKKAVESLFSVKVQRVTTLNVKGKTKRTARG
LGKRNDWKKAYIALQPGQDLDFATSAE*
AnnotationID:5176GeneID:5171
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 16:04:57
Gene Name:rplW
Confidence Code:2
GeneProduct:50S ribosomal protein L23
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:COG0089,pfam00276
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54170.1| (AE016858) ribosomal protein L23 [Pseudomonas syringae pv. tomato
          str. DC3000]
          Length = 99

 Score =  174 bits (440), Expect = 1e-43
 Identities = 88/99 (88%), Positives = 94/99 (94%)

>gb|AAN66086.1|AE016238_4 (AE016775) ribosomal protein L23 [Pseudomonas putida KT2440]
          Length = 99

 Score =  166 bits (420), Expect = 2e-41
 Identities = 82/99 (82%), Positives = 92/99 (92%)

>gb|AAN53318.1|AE015473_5 (AE015473) ribosomal protein L23 [Shewanella oneidensis MR-1]
          Length = 101

 Score =  108 bits (269), Expect = 8e-24
 Identities = 55/99 (55%), Positives = 69/99 (69%)






 
Structural Features:
COG0089, RplW, Ribosomal protein L23 
[Translation, ribosomal structure and biogenesis]
CD-Length = 94 residues, 100.0% aligned
Score =  100 bits (251), Expect = 3e-23
Identities = 47/94 (50%), Positives = 64/94 (68%), Gaps = 1/94 (1%)

pfam00276, Ribosomal_L23, Ribosomal protein L23.
CD-Length = 92 residues,  96.7% aligned
Score = 79.9 bits (197), Expect = 6e-17
Identities = 34/89 (38%), Positives = 51/89 (57%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10342




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27486




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36632




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5171_cdd.html


    		




 
URL:

















    ReferenceID:36739




  
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:36748




  
Author/Investigator(s):
        Wittmann-Liebold B, Greuer B.





  
Title:
        Primary structure of protein L23 from the Escherichia coli ribosome.




  
PubMed:
        391594


MedLine:
        




    
Source:
FEBS Lett. 1979 Dec 1;108(1):69-74.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=80092111&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:5171
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7583
                           PA4261_tr
                           translation of PA4261
                           99
                           99.99
                           99.99
                           0
                           494.0
     

     
     
194291
                           gb|AAG07649.1|AE004841_27
                           (AE004841) 50S ribosomal protein L23 [Pseudomonas aeruginosa PAO1]
                           99
                           99.99
                           99.99
                           0
                           494.0
     

     
     
194292
                           gb|AAO54170.1|
                           (AE016858) ribosomal protein L23 [Pseudomonas syringae pv. tomato str. DC3000]
                           99
                           88.88
                           94.94
                           0
                           440.0
     

     
     
194293
                           gb|AAN66086.1|AE016238_4
                           (AE016775) ribosomal protein L23 [Pseudomonas putida KT2440]
                           99
                           82.82
                           92.92
                           0
                           420.0
     

     
     
194294
                           dbj|BAA21823.1|
                           (D21244) ribosomal protein L23 [Actinobacillus actinomycetemcomitans]
                           100
                           59.00
                           69.00
                           1
                           288.0
     

     






      

          
GC ORFID: 48173How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4261Glimmer Score: 

          
Start: 4193132Stop: 4192833

          
Length: 300


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4261 translation of PA4261Homolog Bit Score 194.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5187 (ORF: BLASTX 174.0), t_PA4261 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACCAGGAACGCGTATTCAAAGTGCTGCTTGGTCCGCACATCTCCGAGAAAGCCACGGGTCTCGCGGAC 
GGCAAGAGCCAATTCGTTTTCAAGGTTGCCACCGATGCAACCAAGCTGGAAATCAAGAAGGCCGTAGAAAGC 
CTGTTCAGCGTGAAGGTACAGCGCGTCACTACCCTGAACGTCAAGGGTAAGACCAAGCGCACCGCTCGCGGT 
CTGGGCAAGCGTAACGACTGGAAAAAAGCGTACATCGCTCTCCAGCCGGGCCAAGATCTCGATTTCGCCACC 
AGCGCTGAGTAA