ViewGene
Locus Name:
GeneID:
Location:

GeneID:5328
TrivialName: PA14_70190
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70190
PAO1 Ortholog Locus:PA5316
Sequence Length:237
Protein Length:78
Start: 6259369
Stop: 6259133
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08701.1|AE004944_5 (AE004944) 50S ribosomal protein L28 [Pseudomonas aeruginosa PAO1]
Identities = 78/78 (100%), Positives = 78/78 (100%)
Sequence:
ATGTCTAGAGTCTGTCAAGTAACCGGTAAGGGTCCGGTTACCGGGAATAACATTTCCCACGCACACAACAAA
ACCCGCCGCCGTTTCCTGCCGAACCTGCAGCACCACCGTTTCTGGGTCGAGTCCGAGAAGCGCTTCGTACGT
CTGCGCGTTTCCGCCAAGGGCATGCGTATCATCGACAAGCGTGGCATCGAGGCCGTCCTGGCTGACCTGCGT
GCCCGCGGCGAAAAATTCTAA
Translation:
MSRVCQVTGKGPVTGNNISHAHNKTRRRFLPNLQHHRFWVESEKRFVRLRVSAKGMRIIDKRGIEAVLADLR
ARGEKF*
AnnotationID:5333GeneID:5328
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 14:02:59
Gene Name:rpmB
Confidence Code:2
GeneProduct:50S ribosomal protein L28
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:COG0227,pfam00830
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70847.1|AE016729_5 (AE016793) ribosomal protein L28 [Pseudomonas putida KT2440]
          Length = 78

 Score =  146 bits (368), Expect = 3e-35
 Identities = 70/77 (90%), Positives = 73/77 (94%)

>gb|AAO53643.1| (AE016856) ribosomal protein L28 [Pseudomonas syringae pv. tomato
          str. DC3000]
          Length = 77

 Score =  143 bits (361), Expect = 2e-34
 Identities = 69/76 (90%), Positives = 72/76 (94%)

>gb|AAL22587.1| (AE008873) 50S ribosomal subunit protein L28 [Salmonella
          typhimurium LT2]
          Length = 78

 Score =  133 bits (335), Expect = 2e-31
 Identities = 65/78 (83%), Positives = 70/78 (89%)








 
Structural Features:
COG0227, RpmB, Ribosomal protein L28 
[Translation, ribosomal structure and biogenesis]
CD-Length = 77 residues, 100.0% aligned
Score = 98.0 bits (244), Expect = 2e-22
Identities = 55/77 (71%), Positives = 65/77 (84%), Gaps = 1/77 (1%)

pfam00830, Ribosomal_L28, Ribosomal L28 family.
CD-Length = 61 residues, 100.0% aligned
Score = 78.8 bits (194), Expect = 1e-16
Identities = 34/61 (55%), Positives = 46/61 (75%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10656




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27804




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34748




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5328_cdd.html


    		




 
URL:

















    ReferenceID:35704




  
Author/Investigator(s):
        Lee JS, An G, Friesen JD, Isono K.





  
Title:
        Cloning and the nucleotide sequence of the genes for Escherichia coli ribosomal proteins L28 (rpmB) and L33 (rpmG).




  
PubMed:
        7035835


MedLine:
        




    
Source:
Mol Gen Genet. 1981;184(2):218-23.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7035835









           
Homologs By Global Alignment 

           

       



     
Gene ID:5328
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7725
                           PA5316_tr
                           translation of PA5316
                           78
                           99.99
                           99.99
                           0
                           407.0
     

     
     
195997
                           gb|AAG08701.1|AE004944_5
                           (AE004944) 50S ribosomal protein L28 [Pseudomonas aeruginosa PAO1]
                           78
                           99.99
                           99.99
                           0
                           407.0
     

     
     
195998
                           gb|AAN70847.1|AE016729_5
                           (AE016793) ribosomal protein L28 [Pseudomonas putida KT2440]
                           78
                           89.74
                           93.58
                           0
                           367.0
     

     
     
195999
                           gb|AAO53643.1|
                           (AE016856) ribosomal protein L28 [Pseudomonas syringae pv. tomato str. DC3000]
                           78
                           88.46
                           92.30
                           1
                           358.0
     

     
     
196003
                           gb|AAC01771.1|
                           (U23405) L28 [Salmonella typhimurium]
                           78
                           83.33
                           89.74
                           0
                           335.0
     

     






      

          
GC ORFID: 48330How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5316Glimmer Score: 

          
Start: 5523058Stop: 5522822

          
Length: 237


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA5316 translation of PA5316Homolog Bit Score 161.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3149 (ORF: BLASTX 143.0), t_PA5316 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCTAGAGTCTGTCAAGTAACCGGTAAGGGTCCGGTTACCGGGAATAACATTTCCCACGCACACAACAAA 
ACCCGCCGCCGTTTCCTGCCGAACCTGCAGCACCACCGTTTCTGGGTCGAGTCCGAGAAGCGCTTCGTACGT 
CTGCGCGTTTCCGCCAAGGGCATGCGTATCATCGACAAGCGTGGCATCGAGGCCGTCCTGGCTGACCTGCGT 
GCCCGCGGCGAAAAATTCTAA