ViewGene
Locus Name:
GeneID:
Location:

GeneID:4448
TrivialName: PA14_42580
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42580
PAO1 Ortholog Locus:PA1696
Sequence Length:477
Protein Length:158
Start: 3789086
Stop: 3789562
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05085.1|AE004596_11 (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
Identities = 156/158 (98%), Positives = 157/158 (99%)
Sequence:
ATGAGCCTGGCGCTGCTGTTGCGCGTCCGACGCCTGCGCCTGGACCGGGCCGAGCGCGCCCAGGGCCGCCAA
TTGCTACGGGTTCGCGCCGCGGCGCAGGAACACACCGAGCGCCAGGCGGCGCAACGGGACTACCGCGACTGG
CGACTGGCCGAAGAGCAACGGCTGTTTCTCGCCTGCCAGGCGGCCATGCTCGACCGCCGACGCCTGGAAGCC
TGGCAGCAGCAGGTAGGGCTGCTGCGGGAAAAGGAAGCCGGCCTGGAACAGGACTGCGCCGAGACCGCGCAG
CGCCTCGAAGGGGAGCGCGAGCGCCTGCGGCAGTGCCGGCGAGAACTGCTGGAACGCCAGCGGCAACTGGAG
AAGTTCGCCGAACTGGAGCGCCACGTCGACGCCGAGCGCCAGGGGCTGCGCGAACGCAGCGAGGAAGGCGAC
CTGGAAGAATTCACCCGCCACGAGACCTGGCCATGCTCAAGCTGA
Translation:
MSLALLLRVRRLRLDRAERAQGRQLLRVRAAAQEHTERQAAQRDYRDWRLAEEQRLFLACQAAMLDRRRLEA
WQQQVGLLREKEAGLEQDCAETAQRLEGERERLRQCRRELLERQRQLEKFAELERHVDAERQGLRERSEEGD
LEEFTRHETWPCSS*
AnnotationID:4454GeneID:4448
AnnotatorUID: danlee
Modification Date/Time: 2006-01-27 15:03:33
Gene Name:pscO
Confidence Code:2
GeneProduct:translocation protein in type III secretion
Cell Localization:(1) Cytoplasmic
Synonyms:
Cell Localization Confidence Code:3
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18043.1| (AY144116) LscO [Photorhabdus luminescens]
          Length = 153

 Score =  119 bits (298), Expect = 6e-27
 Identities = 63/150 (42%), Positives = 91/150 (60%)

>gb|AAN37549.1| (AY150843) YscO [Yersinia enterocolitica]
          Length = 154

 Score =  109 bits (273), Expect = 5e-24
 Identities = 60/146 (41%), Positives = 86/146 (58%)






 
Structural Features:






   
Genomic Context:






   
Comment:


















    ReferenceID:8897




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26039




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37859




  
Author/Investigator(s):
        Bergman T, Erickson K, Galyov E, Persson C, Wolf-Watz H.





  
Title:
        The lcrB (yscN/U) gene cluster of Yersinia pseudotuberculosis is involved in Yop secretion and shows high homology to the spa gene clusters of Shigella flexneri and Salmonella typhimurium.




  
PubMed:
        8169210


MedLine:
        




    
Source:
J Bacteriol. 1994 May;176(9):2619-26.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8169210

















    ReferenceID:37862




  
Author/Investigator(s):
        Payne PL, Straley SC.





  
Title:
        YscO of Yersinia pestis is a mobile core component of the Yop secretion system.




  
PubMed:
        9683485


MedLine:
        




    
Source:
J Bacteriol. 1998 Aug;180(15):3882-90.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9683485









           
Homologs By Global Alignment 

           

       



     
Gene ID:4448
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6791
                           PA1696_tr
                           translation of PA1696
                           158
                           98.73
                           99.36
                           0
                           794.0
     

     
     
181938
                           gb|AAG05085.1|AE004596_11
                           (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
                           158
                           98.73
                           99.36
                           0
                           794.0
     

     
     
181939
                           gb|AAB86535.1|
                           (AF010151) PscO [Pseudomonas aeruginosa]
                           158
                           89.24
                           89.24
                           17
                           703.0
     

     
     
181940
                           emb|CAD56761.1|
                           (AJ516008) ascO protein [Aeromonas salmonicida subsp. salmonicida]
                           158
                           44.93
                           60.75
                           5
                           326.0
     

     
     
181941
                           gb|AAO18043.1|
                           (AY144116) LscO [Photorhabdus luminescens]
                           158
                           39.87
                           57.59
                           5
                           293.0
     

     






      

          
GC ORFID: 47450How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1696Glimmer Score: 

          
Start: 1164823Stop: 1164347

          
Length: 477


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1696 translation of PA1696Homolog Bit Score 310.0

          
Other Homologs:  t_PA1696 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCCTGGCGCTGCTGTTGCGCGTCCGACGCCTGCGCCTGGACCGGGCCGAGCGCGCCCAGGGCCGCCAA 
TTGCTACGGGTTCGCGCCGCGGCGCAGGAACACACCGAGCGCCAGGCGGCGCAACGGGACTACCGCGACTGG 
CGACTGGCCGAAGAGCAACGGCTGTTTCTCGCCTGCCAGGCGGCCATGCTCGACCGCCGACGCCTGGAAGCC 
TGGCAGCAGCAGGTAGGGCTGCTGCGGGAAAAGGAAGCCGGCCTGGAACAGGACTGCGCCGAGACCGCGCAG 
CGCCTCGAAGGGGAGCGCGAGCGCCTGCGGCAGTGCCGGCGAGAACTGCTGGAACGCCAGCGGCAACTGGAG 
AAGTTCGCCGAACTGGAGCGCCACGTCGACGCCGAGCGCCAGGGGCTGCGCGAACGCAGCGAGGAAGGCGAC 
CTGGAAGAATTCACCCGCCACGAGACCTGGCCATGCTCAAGCTGA