ViewGene
Locus Name:
GeneID:
Location:

GeneID:4868
TrivialName: PA14_70480
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70480
PAO1 Ortholog Locus:PA5339
Sequence Length:381
Protein Length:126
Start: 6281317
Stop: 6281697
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08724.1|AE004946_8 (AE004946) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 126/126 (100%), Positives = 126/126 (100%)
Sequence:
ATGACCAAGACCGTTATCCACACCGACAACGCCCCGGCCGCCATCGGCACCTACTCCCAGGCCATCAAGGCC
GGCAATACCGTCTACGTGTCCGGACAGATCCCGCTGGACCCGAAGACCATGGAACTGGTGGAGGGCTTCGAG
GAGCAGACCGTCCAGGTGTTCGAGAACCTCAAGGCGGTGATCGAGGCTTCCGGCGGCTACCTGCACGACGTC
GCCAAGCTGAACATCTTCCTCACCGACCTGTCGCACTTCGCCAAGGTCAACGAGATCATGGGCCGCTACTTC
ACCCAGCCCTACCCGGCGCGCGCCGCCATCGGCGTAGCCGCCCTGCCGAAGGGCGCACAGGTGGAAATGGAC
GCCATCGTCGTCCTCGAATAA
Translation:
MTKTVIHTDNAPAAIGTYSQAIKAGNTVYVSGQIPLDPKTMELVEGFEEQTVQVFENLKAVIEASGGYLHDV
AKLNIFLTDLSHFAKVNEIMGRYFTQPYPARAAIGVAALPKGAQVEMDAIVVLE*
AnnotationID:4873GeneID:4868
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 18:06:02
Gene Name:
Confidence Code:3
GeneProduct:putative endoribonuclease L-PSP
Cell Localization:()
Synonyms:PA5339
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam01042,COG0251
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70868.1|AE016731_3 (AE016794) endoribonuclease [Pseudomonas putida KT2440]
          Length = 126

 Score =  219 bits (557), Expect = 3e-57
 Identities = 109/126 (86%), Positives = 118/126 (93%)

>gb|AAO53626.1| (AE016856) endoribonuclease L-PSP, putative [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 126

 Score =  202 bits (515), Expect = 2e-52
 Identities = 101/126 (80%), Positives = 111/126 (88%)

>gb|AAN53443.1|AE015484_1 (AE015484) endoribonuclease L-PSP, putative [Shewanella oneidensis
           MR-1]
          Length = 127

 Score =  178 bits (451), Expect = 6e-45
 Identities = 89/124 (71%), Positives = 104/124 (83%), Gaps = 1/124 (0%)








 
Structural Features:
pfam01042, Ribonuc_L-PSP, Endoribonuclease L-PSP.
CD-Length = 120 residues, 100.0% aligned
Score =  144 bits (366), Expect = 2e-36
Identities = 79/120 (65%), Positives = 94/120 (78%), Gaps = 2/120 (1%)

COG0251, TdcF, Putative translation initiation inhibitor, yjgF family 
[Translation, ribosomal structure and biogenesis]
CD-Length = 130 residues,  98.5% aligned
Score =  135 bits (340), Expect = 2e-33
Identities = 66/128 (51%), Positives = 84/128 (65%), Gaps = 2/128 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9736




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26877




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34764




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4868_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4868
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7248
                           PA5339_tr
                           translation of PA5339
                           126
                           99.99
                           99.99
                           0
                           634.0
     

     
     
189159
                           gb|AAG08724.1|AE004946_8
                           (AE004946) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           126
                           99.99
                           99.99
                           0
                           634.0
     

     
     
189160
                           gb|AAN70868.1|AE016731_3
                           (AE016794) endoribonuclease [Pseudomonas putida KT2440]
                           126
                           86.50
                           93.65
                           0
                           557.0
     

     
     
189161
                           gb|AAO53626.1|
                           (AE016856) endoribonuclease L-PSP, putative [Pseudomonas syringae pv. tomato str. DC3000]
                           126
                           80.15
                           88.09
                           0
                           515.0
     

     
     
189162
                           gb|AAA82514.1|
                           (M26752) ORF 1; putative [Azotobacter vinelandii]
                           127
                           76.37
                           87.40
                           1
                           487.0
     

     






      

          
GC ORFID: 47870How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5339Glimmer Score: 

          
Start: 5545006Stop: 5545386

          
Length: 381


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA5339 translation of PA5339Homolog Bit Score 248.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3943 (ORF: BLASTX 202.0), t_PA5339 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCAAGACCGTTATCCACACCGACAACGCCCCGGCCGCCATCGGCACCTACTCCCAGGCCATCAAGGCC 
GGCAATACCGTCTACGTGTCCGGACAGATCCCGCTGGACCCGAAGACCATGGAACTGGTGGAGGGCTTCGAG 
GAGCAGACCGTCCAGGTGTTCGAGAACCTCAAGGCGGTGATCGAGGCTTCCGGCGGCTACCTGCACGACGTC 
GCCAAGCTGAACATCTTCCTCACCGACCTGTCGCACTTCGCCAAGGTCAACGAGATCATGGGCCGCTACTTC 
ACCCAGCCCTACCCGGCGCGCGCCGCCATCGGCGTAGCCGCCCTGCCGAAGGGCGCACAGGTGGAAATGGAC 
GCCATCGTCGTCCTCGAATAA