ViewGene
Locus Name:
GeneID:
Location:

GeneID:2834
TrivialName: PA14_08880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08880
PAO1 Ortholog Locus:PA4260
Sequence Length:822
Protein Length:273
Start: 761118
Stop: 761939
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07648.1|AE004841_26 (AE004841) 50S ribosomal protein L2 [Pseudomonas aeruginosa PAO1]
Identities = 273/273 (100%), Positives = 273/273 (100%)
Sequence:
ATGGCAATCGTTAAGTGCAAACCGACTTCCGCTGGTCGTCGCTTTGTCGTCAAGGTGGTGAATCAGGAGCTG
CACAAAGGCGCTCCCTACGCACCGCTGCTGGAAAAGAAATCCAAGTCTGGCGGCCGTAACAACAACGGTCGT
ATCACCACCCGTCATATCGGTGGTGGTCACAAGCAGCACTACCGTCTGGTCGACTTCCGTCGCAACAAGGAT
GGCATCCCTGCCATCGTTGAACGCGTCGAATACGATCCGAACCGCACTGCACACATCGCTCTGCTGAAGTAT
GCAGACGGCGAGCGTCGCTACATCATCGCCCCCAAGGGCGTTGCTGCAGGTGACCAGCTGATCTCCGGTATC
GGTGCGCCGATCAAGGCAGGCAACAGCATGCCTCTGCGCAACATCCCGGTGGGTAGCACTGTTCATGGTATC
GAGCTGAAGCCGGGTAAAGGCGCTCAGATCGCTCGCTCCGCTGGCGCTTCCGCCCAGCTGGTCGCGCGTGAA
GGTGCGTACGTAACCCTGCGTCTGCGCTCCGGTGAAATGCGTAAAGTCCTGGCTGAGTGCCGTGCGACCCTG
GGCGAAGTCTCGAACTCCGAGCACAGCCTGCGTTCGCTGGGTAAAGCCGGTGCTACGCGCTGGCGTGGTGTT
CGCCCGACCGTTCGCGGCGTGGCGATGAACCCGGTCGACCACCCGCATGGTGGTGGTGAAGGCCGTACCTCT
GCTGGTCGTCATCCGGTATCGCCGTGGGGTCTTCAGACCAAGGGTAAGAAGACTCGCTCGAACAAGCGTACC
GATAACATGATCGTCCGCCGCCGCAAGTAA
Translation:
MAIVKCKPTSAGRRFVVKVVNQELHKGAPYAPLLEKKSKSGGRNNNGRITTRHIGGGHKQHYRLVDFRRNKD
GIPAIVERVEYDPNRTAHIALLKYADGERRYIIAPKGVAAGDQLISGIGAPIKAGNSMPLRNIPVGSTVHGI
ELKPGKGAQIARSAGASAQLVAREGAYVTLRLRSGEMRKVLAECRATLGEVSNSEHSLRSLGKAGATRWRGV
RPTVRGVAMNPVDHPHGGGEGRTSAGRHPVSPWGLQTKGKKTRSNKRTDNMIVRRRK*
AnnotationID:2842GeneID:2834
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 12:12:24
Gene Name:rplB
Confidence Code:2
GeneProduct:50S ribosomal protein L2
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:COG0090,pfam03947,pfam00181
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66087.1|AE016238_5 (AE016775) ribosomal protein L2 [Pseudomonas putida KT2440]
          Length = 274

 Score =  507 bits (1306), Expect = e-143
 Identities = 250/274 (91%), Positives = 260/274 (94%), Gaps = 1/274 (0%)

>gb|AAO54171.1| (AE016858) ribosomal protein L2 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 274

 Score =  500 bits (1287), Expect = e-141
 Identities = 248/274 (90%), Positives = 257/274 (93%), Gaps = 1/274 (0%)

>gb|AAC43513.1| (U11251) ribosomal protein L2 [Yersinia enterocolitica]
          Length = 274

 Score =  465 bits (1197), Expect = e-130
 Identities = 222/272 (81%), Positives = 249/272 (91%), Gaps = 1/272 (0%)








 
Structural Features:
COG0090, RplB, Ribosomal protein L2 [Translation, ribosomal structure and biogenesis]
CD-Length = 275 residues,  99.6% aligned
Score =  391 bits (1006), Expect = 5e-110
Identities = 174/274 (63%), Positives = 204/274 (74%), Gaps = 1/274 (0%)

pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, C-terminal domain.
CD-Length = 130 residues,  98.5% aligned
Score =  189 bits (482), Expect = 3e-49
Identities = 88/128 (68%), Positives = 103/128 (80%), Gaps = 1/128 (0%)

pfam00181, Ribosomal_L2, Ribosomal Proteins L2, RNA binding domain.
CD-Length = 76 residues, 100.0% aligned
Score =  108 bits (271), Expect = 8e-25
Identities = 49/76 (64%), Positives = 60/76 (78%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5671




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22814




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36631




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2834_cdd.html


    		




 
URL:

















    ReferenceID:36738




  
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:36743




  
Author/Investigator(s):
        Mikulik K, Man P, Halada P.





  
Title:
        Characterization of the rplB gene from Streptomyces collinus and its protein product by mass spectrometry.




  
PubMed:
        11478805


MedLine:
        




    
Source:
Biochem Biophys Res Commun. 2001 Aug 3;285(5):1344-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11478805









           
Homologs By Global Alignment 

           

       



     
Gene ID:2834
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4595
                           PA4260_tr
                           translation of PA4260
                           273
                           99.99
                           99.99
                           0
                           1417.0
     

     
     
132273
                           gb|AAG07648.1|AE004841_26
                           (AE004841) 50S ribosomal protein L2 [Pseudomonas aeruginosa PAO1]
                           273
                           99.99
                           99.99
                           0
                           1417.0
     

     
     
132274
                           gb|AAN66087.1|AE016238_5
                           (AE016775) ribosomal protein L2 [Pseudomonas putida KT2440]
                           274
                           91.24
                           94.89
                           1
                           1308.0
     

     
     
132275
                           gb|AAO54171.1|
                           (AE016858) ribosomal protein L2 [Pseudomonas syringae pv. tomato str. DC3000]
                           274
                           90.51
                           93.79
                           1
                           1289.0
     

     
     
132277
                           gb|AAF95734.1|
                           (AE004326) ribosomal protein L2 [Vibrio cholerae O1 biovar eltor str. N16961]
                           274
                           82.48
                           89.41
                           1
                           1196.0
     

     






      

          
GC ORFID: 45836How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4260Glimmer Score: 

          
Start: 4192821Stop: 4192000

          
Length: 822


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4260 translation of PA4260Homolog Bit Score 550.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5188 (ORF: BLASTX 501.0), t_PA4260 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCAATCGTTAAGTGCAAACCGACTTCCGCTGGTCGTCGCTTTGTCGTCAAGGTGGTGAATCAGGAGCTG 
CACAAAGGCGCTCCCTACGCACCGCTGCTGGAAAAGAAATCCAAGTCTGGCGGCCGTAACAACAACGGTCGT 
ATCACCACCCGTCATATCGGTGGTGGTCACAAGCAGCACTACCGTCTGGTCGACTTCCGTCGCAACAAGGAT 
GGCATCCCTGCCATCGTTGAACGCGTCGAATACGATCCGAACCGCACTGCACACATCGCTCTGCTGAAGTAT 
GCAGACGGCGAGCGTCGCTACATCATCGCCCCCAAGGGCGTTGCTGCAGGTGACCAGCTGATCTCCGGTATC 
GGTGCGCCGATCAAGGCAGGCAACAGCATGCCTCTGCGCAACATCCCGGTGGGTAGCACTGTTCATGGTATC 
GAGCTGAAGCCGGGTAAAGGCGCTCAGATCGCTCGCTCCGCTGGCGCTTCCGCCCAGCTGGTCGCGCGTGAA 
GGTGCGTACGTAACCCTGCGTCTGCGCTCCGGTGAAATGCGTAAAGTCCTGGCTGAGTGCCGTGCGACCCTG 
GGCGAAGTCTCGAACTCCGAGCACAGCCTGCGTTCGCTGGGTAAAGCCGGTGCTACGCGCTGGCGTGGTGTT 
CGCCCGACCGTTCGCGGCGTGGCGATGAACCCGGTCGACCACCCGCATGGTGGTGGTGAAGGCCGTACCTCT 
GCTGGTCGTCATCCGGTATCGCCGTGGGGTCTTCAGACCAAGGGTAAGAAGACTCGCTCGAACAAGCGTACC 
GATAACATGATCGTCCGCCGCCGCAAGTAA