ViewGene
Locus Name:
GeneID:
Location:

GeneID:5018
TrivialName: PA14_09010
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_09010
PAO1 Ortholog Locus:PA4247
Sequence Length:351
Protein Length:116
Start: 766895
Stop: 767245
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07635.1|AE004841_13 (AE004841) 50S ribosomal protein L18 [Pseudomonas aeruginosa PAO1]
Identities = 116/116 (100%), Positives = 116/116 (100%)
Sequence:
ATGAGCGTCAAGAAAGAAACCCGTCTGCGTCGCGCTCGCAAGGCACGCCTGAAGATGCGCGAGCTGGAAACC
GTACGCCTCTGCGTGTACCGCTCTTCCCAGCACATTTACGCCCAGGTCATTGCGGCCGACGGCGGCAAGGTC
CTGGCCAGCGCCTCGACCCTGGACAAAGACCTGCGCGAAGGTGCCACCGGCAACATCGATGCAGCCAAGAAA
GTTGGTCAACTGGTCGCCGAGCGCGCCAAAGCGGCCGGCGTCACCCAGGTGGCGTTCGATCGTTCTGGCTTC
AAGTACCACGGCCGTGTGAAAGCGCTGGCTGATGCCGCTCGTGAAGGCGGACTGGAGTTCTAA
Translation:
MSVKKETRLRRARKARLKMRELETVRLCVYRSSQHIYAQVIAADGGKVLASASTLDKDLREGATGNIDAAKK
VGQLVAERAKAAGVTQVAFDRSGFKYHGRVKALADAAREGGLEF*
AnnotationID:5023GeneID:5018
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 09:09:37
Gene Name:rplR
Confidence Code:2
GeneProduct:50S ribosomal protein L18
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:COG0256,pfam00861
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54184.1| (AE016858) ribosomal protein L18 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 116

 Score =  202 bits (513), Expect = 4e-52
 Identities = 104/116 (89%), Positives = 111/116 (95%)

>gb|AAN66100.1|AE016238_18 (AE016775) ribosomal protein L18 [Pseudomonas putida KT2440]
          Length = 116

 Score =  199 bits (505), Expect = 3e-51
 Identities = 103/116 (88%), Positives = 109/116 (93%)

>gb|AAM35871.1| (AE011728) 50S ribosomal protein L18 [Xanthomonas axonopodis pv.
           citri str. 306]
          Length = 119

 Score =  142 bits (359), Expect = 3e-34
 Identities = 73/119 (61%), Positives = 92/119 (77%), Gaps = 3/119 (2%)








 
Structural Features:
COG0256, RplR, Ribosomal protein L18 
[Translation, ribosomal structure and biogenesis]
CD-Length = 125 residues,  96.8% aligned
Score =  124 bits (312), Expect = 3e-30
Identities = 63/121 (52%), Positives = 80/121 (66%), Gaps = 5/121 (4%)

pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e family.
CD-Length = 119 residues,  98.3% aligned
Score =  111 bits (278), Expect = 3e-26
Identities = 55/117 (47%), Positives = 68/117 (58%), Gaps = 4/117 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10036




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27177




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36532




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5018_cdd.html


    		




 
URL:

















    ReferenceID:36722




  
Author/Investigator(s):
        Cerretti DP, Dean D, Davis GR, Bedwell DM, Nomura M.





  
Title:
        The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene.




  
PubMed:
        6222285


MedLine:
        




    
Source:
Nucleic Acids Res. 1983 May 11;11(9):2599-616.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6222285

















    ReferenceID:36753




  
Author/Investigator(s):
        Brosius J, Schiltz E, Chen R.





  
Title:
        The primary structure of the 5S RNA binding protein L18 from Escherichia coli ribosomes.




  
PubMed:
        1098937


MedLine:
        




    
Source:
FEBS Lett. 1975 Aug 15;56(2):359-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=76003293&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:5018
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7424
                           PA4247_tr
                           translation of PA4247
                           116
                           99.99
                           99.99
                           0
                           568.0
     

     
     
192035
                           gb|AAG07635.1|AE004841_13
                           (AE004841) 50S ribosomal protein L18 [Pseudomonas aeruginosa PAO1]
                           116
                           99.99
                           99.99
                           0
                           568.0
     

     
     
192036
                           gb|AAO54184.1|
                           (AE016858) ribosomal protein L18 [Pseudomonas syringae pv. tomato str. DC3000]
                           116
                           89.65
                           95.68
                           0
                           513.0
     

     
     
192037
                           gb|AAN66100.1|AE016238_18
                           (AE016775) ribosomal protein L18 [Pseudomonas putida KT2440]
                           116
                           88.79
                           93.96
                           0
                           505.0
     

     
     
192042
                           gb|AAQ61830.1|
                           (AE016924) 50S ribosomal protein L18 [Chromobacterium violaceum ATCC 12472]
                           118
                           61.86
                           77.11
                           3
                           354.0
     

     






      

          
GC ORFID: 48020How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4247Glimmer Score: 

          
Start: 4187044Stop: 4186694

          
Length: 351


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4247 translation of PA4247Homolog Bit Score 223.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5201 (ORF: BLASTX 202.0), t_PA4247 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGTCAAGAAAGAAACCCGTCTGCGTCGCGCTCGCAAGGCACGCCTGAAGATGCGCGAGCTGGAAACC 
GTACGCCTCTGCGTGTACCGCTCTTCCCAGCACATTTACGCCCAGGTCATTGCGGCCGACGGCGGCAAGGTC 
CTGGCCAGCGCCTCGACCCTGGACAAAGACCTGCGCGAAGGTGCCACCGGCAACATCGATGCAGCCAAGAAA 
GTTGGTCAACTGGTCGCCGAGCGCGCCAAAGCGGCCGGCGTCACCCAGGTGGCGTTCGATCGTTCTGGCTTC 
AAGTACCACGGCCGTGTGAAAGCGCTGGCTGATGCCGCTCGTGAAGGCGGACTGGAGTTCTAA