ViewGene
Locus Name:
GeneID:
Location:

GeneID:5006
TrivialName: PA14_08750
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08750
PAO1 Ortholog Locus:PA4271
Sequence Length:369
Protein Length:122
Start: 745613
Stop: 745981
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07659.1|AE004843_1 (AE004843) 50S ribosomal protein L7 / L12 [Pseudomonas aeruginosa PAO1]
Identities = 122/122 (100%), Positives = 122/122 (100%)
Sequence:
ATGGCTCTGACCAACGAAGACATCATCAACGCCGTATCCGAAATGTCCGTCATGCAAGTGGTCGAACTGATC
AAGGCGATGGAAGAGAAGTTCGGCGTTACCGCTGCTGCCGCTACCGTTGCCGCTGCTGGCCCGGCTGCTGCC
GCTGCCGAAGAGCAGACCGAGTTCACCATCGTCCTGGCCGAAGCTGGCGACAAGAAAGTGAACGTGATCAAG
GTCGTTCGCGAACTGACCGGTCTGGGTCTGAAAGAAGCCAAGGCTGTCGTAGACGGCGCTCCGGGCGTGGTG
AAGGAAGGCGCTTCGAAAGAAGAAGCCGAAGCCGCCAAGAAAGCCCTGGAAGAAGCAGGCGCCAAAGTCGAG
CTCAAGTAA
Translation:
MALTNEDIINAVSEMSVMQVVELIKAMEEKFGVTAAAATVAAAGPAAAAAEEQTEFTIVLAEAGDKKVNVIK
VVRELTGLGLKEAKAVVDGAPGVVKEGASKEEAEAAKKALEEAGAKVELK*
AnnotationID:5011GeneID:5006
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 17:05:26
Gene Name:rplL
Confidence Code:2
GeneProduct:50S ribosomal protein L7 / L12
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:COG0222,pfam00542
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66076.1|AE016236_10 (AE016775) ribosomal protein L7/L12 [Pseudomonas putida KT2440]
          Length = 121

 Score =  169 bits (428), Expect = 3e-42
 Identities = 96/124 (77%), Positives = 103/124 (83%), Gaps = 5/124 (4%)

>gb|AAO54160.1| (AE016858) ribosomal protein L7/L12 [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 121

 Score =  167 bits (423), Expect = 1e-41
 Identities = 91/124 (73%), Positives = 106/124 (85%), Gaps = 5/124 (4%)

>gb|AAO09670.1|AE016800_275 (AE016800) Ribosomal protein L7/L12 [Vibrio vulnificus CMCP6]
          Length = 122

 Score =  161 bits (407), Expect = 7e-40
 Identities = 85/122 (69%), Positives = 96/122 (78%)








 
Structural Features:
COG0222, RplL, Ribosomal protein L7/L12 
[Translation, ribosomal structure and biogenesis]
CD-Length = 124 residues, 100.0% aligned
Score = 98.4 bits (245), Expect = 2e-22
Identities = 86/124 (69%), Positives = 100/124 (80%), Gaps = 2/124 (1%)

pfam00542, Ribosomal_L12, Ribosomal protein L7/L12 C-terminal domain. 
CD-Length = 68 residues, 100.0% aligned
Score = 64.2 bits (156), Expect = 4e-12
Identities = 51/68 (75%), Positives = 59/68 (86%)








   
Genomic Context:






   
Comment:


















    ReferenceID:10012




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27153




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36545




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5006_cdd.html


    		




 
URL:

















    ReferenceID:36775




  
Author/Investigator(s):
        Newman A, Hayward RS.





  
Title:
        Cloning of DNA of the rpoBC operon from the chromosome of Escherichia coli K12.




  
PubMed:
        6246404


MedLine:
        




    
Source:
Mol Gen Genet. 1980 Feb;177(3):527-33.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6246404

















    ReferenceID:36776




  
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:36780




  
Author/Investigator(s):
        Borodin AM, Danilkovich AV, Allikmets RL.





  
Title:
        [Nucleotide sequence of the rplL gene coding for ribosomal protein L7/L12 of Pseudomonas putida]




  
PubMed:
        2751714


MedLine:
        




    
Source:
Bioorg Khim. 1989 Apr;15(4):560-1.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=89322401&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:5006
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7412
                           PA4271_tr
                           translation of PA4271
                           122
                           99.99
                           99.99
                           0
                           572.0
     

     
     
191530
                           gb|AAG07659.1|AE004843_1
                           (AE004843) 50S ribosomal protein L7 / L12 [Pseudomonas aeruginosa PAO1]
                           122
                           99.99
                           99.99
                           0
                           572.0
     

     
     
191531
                           gb|AAN66076.1|AE016236_10
                           (AE016775) ribosomal protein L7/L12 [Pseudomonas putida KT2440]
                           124
                           77.41
                           83.06
                           5
                           433.0
     

     
     
191532
                           gb|AAO54160.1|
                           (AE016858) ribosomal protein L7/L12 [Pseudomonas syringae pv. tomato str. DC3000]
                           124
                           73.38
                           85.48
                           5
                           428.0
     

     
     
191535
                           gb|AAF93500.1|
                           (AE004121) ribosomal protein L7/L12 [Vibrio cholerae O1 biovar eltor str. N16961]
                           123
                           73.17
                           82.92
                           3
                           410.0
     

     






      

          
GC ORFID: 48008How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4271Glimmer Score: 

          
Start: 4208326Stop: 4207958

          
Length: 369


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4271 translation of PA4271Homolog Bit Score 224.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene84 (ORF: BLASTX 163.0), t_PA4271 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTCTGACCAACGAAGACATCATCAACGCCGTATCCGAAATGTCCGTCATGCAAGTGGTCGAACTGATC 
AAGGCGATGGAAGAGAAGTTCGGCGTTACCGCTGCTGCCGCTACCGTTGCCGCTGCTGGCCCGGCTGCTGCC 
GCTGCCGAAGAGCAGACCGAGTTCACCATCGTCCTGGCCGAAGCTGGCGACAAGAAAGTGAACGTGATCAAG 
GTCGTTCGCGAACTGACCGGTCTGGGTCTGAAAGAAGCCAAGGCTGTCGTAGACGGCGCTCCGGGCGTGGTG 
AAGGAAGGCGCTTCGAAAGAAGAAGCCGAAGCCGCCAAGAAAGCCCTGGAAGAAGCAGGCGCCAAAGTCGAG 
CTCAAGTAA