ViewGene
Locus Name:
GeneID:
Location:

GeneID:3566
TrivialName: PA14_08730
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08730
PAO1 Ortholog Locus:PA4273
Sequence Length:696
Protein Length:231
Start: 744140
Stop: 744835
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07661.1|AE004843_3 (AE004843) 50S ribosomal protein L1 [Pseudomonas aeruginosa PAO1]
Identities = 231/231 (100%), Positives = 231/231 (100%)
Sequence:
ATGGCTAAGCTGACCAAGCGCCAGAAGGCGATTGCCGAGAAAGTAGTTGCCGGCAAGCAGTACAGCTTCGAA
GAGGCCGCCAAGCTGCTGGCCGAGCTGTCCACCATCAAGTTCAAGGAGTCCGTGGACGTTGCCGTGAACCTC
GGCGTCGATCCGCGTAAATCCGACCAGGTCGTTCGTGGCGCCACCGTCCTGCCGAACGGCACCGGCAAGAGC
GTCCGCGTTGCCGTCTTCACCCAGGGTCCGGCTGCCGAAGCCGCTCTGGCTGCCGGCGCCGACAAGGTGGGT
ATGGACGAGCTGGCTGCCGAAATGAAAGGCGGCGACCTGAACTACGACGTCGTCATCGCTTCCCCGGATGCC
ATGCGTGTCGTCGGTCAGCTGGGCCAGATCCTCGGCCCGCGTGGTCTGATGCCGAACCCGAAAGTCGGCACC
GTGACTCCGGACGTCGCTACCGCCGTGAAGAATGCCAAGGCTGGTCAGGTACGTTTCCGTACCGACAAGAAC
GGCATCATCCACAGCTCCGTCGGTAAGGTCGATTTCGAACCGGCCAAGCTGCAGCAGAACGTTGAAGCACTG
CTGGCTGACCTGAAGCGCCTGAAGCCGTCCTCGTCGAAAGGCGTGTACGTCAAGCGCGTGACCCTGAGCACC
ACCATGGGTCCGGGCCTGCAGATCGACCTGGCTTCCCTGGAAGCCTAA
Translation:
MAKLTKRQKAIAEKVVAGKQYSFEEAAKLLAELSTIKFKESVDVAVNLGVDPRKSDQVVRGATVLPNGTGKS
VRVAVFTQGPAAEAALAAGADKVGMDELAAEMKGGDLNYDVVIASPDAMRVVGQLGQILGPRGLMPNPKVGT
VTPDVATAVKNAKAGQVRFRTDKNGIIHSSVGKVDFEPAKLQQNVEALLADLKRLKPSSSKGVYVKRVTLST
TMGPGLQIDLASLEA*
AnnotationID:3574GeneID:3566
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 17:05:31
Gene Name:rplA
Confidence Code:2
GeneProduct:50S ribosomal protein L1
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:pfam00687
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54158.1| (AE016858) ribosomal protein L1 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 231

 Score =  390 bits (1003), Expect = e-108
 Identities = 197/231 (85%), Positives = 217/231 (93%)

>gb|AAN66074.1|AE016236_8 (AE016775) ribosomal protein L1 [Pseudomonas putida KT2440]
          Length = 231

 Score =  385 bits (989), Expect = e-106
 Identities = 196/229 (85%), Positives = 214/229 (93%)

>gb|AAL22978.1| (AE008894) 50S ribosomal subunit protein L1 [Salmonella typhimurium
           LT2]
          Length = 234

 Score =  331 bits (848), Expect = 2e-90
 Identities = 167/231 (72%), Positives = 198/231 (85%)








 
Structural Features:
pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family
CD-Length = 207 residues,  98.1% aligned
Score =  242 bits (620), Expect = 2e-65
Identities = 117/203 (57%), Positives = 146/203 (71%)






   
Genomic Context:






   
Comment:


















    ReferenceID:7135




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24277




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36546




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3566_cdd.html


    		




 
URL:

















    ReferenceID:36778




  
Author/Investigator(s):
        Post LE, Strycharz GD, Nomura M, Lewis H, Dennis PP.





  
Title:
        Nucleotide sequence of the ribosomal protein gene cluster adjacent to the gene for RNA polymerase subunit beta in Escherichia coli.




  
PubMed:
        377281


MedLine:
        




    
Source:
Proc Natl Acad Sci U S A. 1979 Apr;76(4):1697-701.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=377281

















    ReferenceID:36782




  
Author/Investigator(s):
        Brauer D, Ochsner I.





  
Title:
        The primary structure of protein L1 from the large ribosomal subunit of Escherichia coli.




  
PubMed:
        365581


MedLine:
        




    
Source:
FEBS Lett. 1978 Dec 15;96(2):317-21.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=79086245&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:3566
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5687
                           PA4273_tr
                           translation of PA4273
                           231
                           99.99
                           99.99
                           0
                           1133.0
     

     
     
158347
                           gb|AAG07661.1|AE004843_3
                           (AE004843) 50S ribosomal protein L1 [Pseudomonas aeruginosa PAO1]
                           231
                           99.99
                           99.99
                           0
                           1133.0
     

     
     
158348
                           gb|AAO54158.1|
                           (AE016858) ribosomal protein L1 [Pseudomonas syringae pv. tomato str. DC3000]
                           231
                           85.28
                           93.93
                           0
                           1003.0
     

     
     
158349
                           gb|AAN66074.1|AE016236_8
                           (AE016775) ribosomal protein L1 [Pseudomonas putida KT2440]
                           231
                           84.84
                           92.64
                           0
                           989.0
     

     
     
158353
                           gb|AAF33496.1|
                           (AF170176) 98% identity over 233 amino acids to E. coli 50S ribosomal subunit protein L1 (RPLA) (SW:P02384); contains similarity to Pfam domain PF00687 (Ribosomal_L1), Score=439.8, E=2.4e-128, N=1 [Salmonella typhimurium LT2]
                           234
                           71.36
                           84.61
                           3
                           848.0
     

     






      

          
GC ORFID: 46568How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4273Glimmer Score: 

          
Start: 4209799Stop: 4209104

          
Length: 696


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4273 translation of PA4273Homolog Bit Score 441.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene82 (ORF: BLASTX 389.0), t_PA4273 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTAAGCTGACCAAGCGCCAGAAGGCGATTGCCGAGAAAGTAGTTGCCGGCAAGCAGTACAGCTTCGAA 
GAGGCCGCCAAGCTGCTGGCCGAGCTGTCCACCATCAAGTTCAAGGAGTCCGTGGACGTTGCCGTGAACCTC 
GGCGTCGATCCGCGTAAATCCGACCAGGTCGTTCGTGGCGCCACCGTCCTGCCGAACGGCACCGGCAAGAGC 
GTCCGCGTTGCCGTCTTCACCCAGGGTCCGGCTGCCGAAGCCGCTCTGGCTGCCGGCGCCGACAAGGTGGGT 
ATGGACGAGCTGGCTGCCGAAATGAAAGGCGGCGACCTGAACTACGACGTCGTCATCGCTTCCCCGGATGCC 
ATGCGTGTCGTCGGTCAGCTGGGCCAGATCCTCGGCCCGCGTGGTCTGATGCCGAACCCGAAAGTCGGCACC 
GTGACTCCGGACGTCGCTACCGCCGTGAAGAATGCCAAGGCTGGTCAGGTACGTTTCCGTACCGACAAGAAC 
GGCATCATCCACAGCTCCGTCGGTAAGGTCGATTTCGAACCGGCCAAGCTGCAGCAGAACGTTGAAGCACTG 
CTGGCTGACCTGAAGCGCCTGAAGCCGTCCTCGTCGAAAGGCGTGTACGTCAAGCGCGTGACCCTGAGCACC 
ACCATGGGTCCGGGCCTGCAGATCGACCTGGCTTCCCTGGAAGCCTAA