ViewGene
Locus Name:
GeneID:
Location:

GeneID:3178
TrivialName: PA14_42640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42640
PAO1 Ortholog Locus:PA1691
Sequence Length:789
Protein Length:262
Start: 3792510
Stop: 3793298
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05080.1|AE004596_6 (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
Identities = 260/262 (99%), Positives = 260/262 (99%)
Sequence:
ATGAGCGTCCAGGACCTGCAGCAACTGCTGCTGACCTACAGCCTGCTGCTGCCGCGGATCATCAGTTGCTTC
GTGGTCCTGCCGGTGCTGGCCAAGCAGACCCTGGGCGGCGGCCTGGTGCGCAACGGCGTGGCCTGCTCGCTG
GCGCTGTTCGCCTACCCGATCGTCGCCGGCAGCCTGCCGCCGGCCCTCGGCGCGCTGGACATCGCCCTGCTG
ATCGGCAAGGAAGTGCTGCTCGGCCTGCTCATCGGCTTCGTCGCCACCATTCCCTTCTGGGCCATGGAAGCG
ACCGGCTTCATCATCGACAACCAGCGTGGCGCGGCACTCGCCTCGACCCTCAACCCCAGCCTGGGCAGCCAG
ACCAGCCCCACCGGGCTGTTGCTGACGCAGACGCTGATCACCCTGTTCTTCTCCGGCGGCGCCTTCCTCGCG
CTGGTCGGCTCGCTGTTCAGGAGCTATGCCAGTTGGCCGGTGAGCAGTTTCTTCCCGCAGTTCGGCAGCCAA
TGGGTGGCATTCTTCTACGCGCAGTTCTCGCAGATGCTGATGCTCTGCGCGCTGTTCGCCGCGCCGCTGCTG
ATCGCCATGTTCCTCGCCGAGTTCGGCCTGGCGCTGGTCAGCCGCTTCGCCCCGTCGCTGAACGTGTTCATC
CTCGCCATGCCGATCAAGAGCCTGGTCGCCAGCCTGCTGCTGGTGCTCTACCTGGGCATCCTCATGGAGCAC
GCCTACGATGCCCTGCTGCTCGCCGTCGACCCGCTGCGCCTGCTGCGTCCCGTGCTGGAGACGCCATGA
Translation:
MSVQDLQQLLLTYSLLLPRIISCFVVLPVLAKQTLGGGLVRNGVACSLALFAYPIVAGSLPPALGALDIALL
IGKEVLLGLLIGFVATIPFWAMEATGFIIDNQRGAALASTLNPSLGSQTSPTGLLLTQTLITLFFSGGAFLA
LVGSLFRSYASWPVSSFFPQFGSQWVAFFYAQFSQMLMLCALFAAPLLIAMFLAEFGLALVSRFAPSLNVFI
LAMPIKSLVASLLLVLYLGILMEHAYDALLLAVDPLRLLRPVLETP*
AnnotationID:3186GeneID:3178
AnnotatorUID: diggins
Modification Date/Time: 2005-02-28 05:05:59
Gene Name:pscT
Confidence Code:2
GeneProduct:translocation protein in type III secretion
Cell Localization:()
Synonyms:yscT
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG4791,pfam01311
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18038.1| (AY144116) LscT [Photorhabdus luminescens]
          Length = 262

 Score =  404 bits (1037), Expect = e-112
 Identities = 196/262 (74%), Positives = 233/262 (88%)

>gb|AAC69785.1| (AF074612) type III secretion protein [Yersinia pestis KIM]
          Length = 261

 Score =  357 bits (916), Expect = 4e-98
 Identities = 177/255 (69%), Positives = 213/255 (83%)

>dbj|BAC59937.1| (AP005078) translocation protein in type III secretion [Vibrio
           parahaemolyticus]
          Length = 261

 Score =  321 bits (822), Expect = 3e-87
 Identities = 153/250 (61%), Positives = 200/250 (80%), Gaps = 2/250 (0%)






 
Structural Features:
COG4791, EscT, Type III secretory pathway, component EscT 
[Intracellular trafficking and secretion]
CD-Length = 259 residues, 100.0% aligned
Score =  219 bits (560), Expect = 2e-58
Identities = 134/261 (51%), Positives = 178/261 (68%), Gaps = 2/261 (0%)

pfam01311, Bac_export_1, Bacterial export proteins, family 1.
CD-Length = 249 residues, 100.0% aligned
Score =  160 bits (406), Expect = 1e-40
Identities = 109/250 (43%), Positives = 145/250 (58%), Gaps = 1/250 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6359




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23501




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37192




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3178_cdd.html


    		




 
URL:

















    ReferenceID:37864




  
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









           
Homologs By Global Alignment 

           

       



     
Gene ID:3178
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5111
                           PA1691_tr
                           translation of PA1691
                           262
                           99.23
                           99.23
                           0
                           1284.0
     

     
     
143295
                           gb|AAG05080.1|AE004596_6
                           (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
                           262
                           99.23
                           99.23
                           0
                           1284.0
     

     
     
143296
                           gb|AAO18038.1|
                           (AY144116) LscT [Photorhabdus luminescens]
                           262
                           74.80
                           88.93
                           0
                           1037.0
     

     
     
143297
                           emb|CAE16145.1|
                           (BX571871) Type III secretion component protein SctT [Photorhabdus luminescens subsp. laumondii TTO1]
                           262
                           74.04
                           88.54
                           0
                           1028.0
     

     
     
143298
                           emb|CAD56766.1|
                           (AJ516008) ascT protein [Aeromonas salmonicida subsp. salmonicida]
                           262
                           70.22
                           83.96
                           0
                           964.0
     

     






      

          
GC ORFID: 46180How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1691Glimmer Score: 

          
Start: 1161399Stop: 1160611

          
Length: 789


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1691 translation of PA1691Homolog Bit Score 499.0

          
Other Homologs:  t_PA1691 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGTCCAGGACCTGCAGCAACTGCTGCTGACCTACAGCCTGCTGCTGCCGCGGATCATCAGTTGCTTC 
GTGGTCCTGCCGGTGCTGGCCAAGCAGACCCTGGGCGGCGGCCTGGTGCGCAACGGCGTGGCCTGCTCGCTG 
GCGCTGTTCGCCTACCCGATCGTCGCCGGCAGCCTGCCGCCGGCCCTCGGCGCGCTGGACATCGCCCTGCTG 
ATCGGCAAGGAAGTGCTGCTCGGCCTGCTCATCGGCTTCGTCGCCACCATTCCCTTCTGGGCCATGGAAGCG 
ACCGGCTTCATCATCGACAACCAGCGTGGCGCGGCACTCGCCTCGACCCTCAACCCCAGCCTGGGCAGCCAG 
ACCAGCCCCACCGGGCTGTTGCTGACGCAGACGCTGATCACCCTGTTCTTCTCCGGCGGCGCCTTCCTCGCG 
CTGGTCGGCTCGCTGTTCAGGAGCTATGCCAGTTGGCCGGTGAGCAGTTTCTTCCCGCAGTTCGGCAGCCAA 
TGGGTGGCATTCTTCTACGCGCAGTTCTCGCAGATGCTGATGCTCTGCGCGCTGTTCGCCGCGCCGCTGCTG 
ATCGCCATGTTCCTCGCCGAGTTCGGCCTGGCGCTGGTCAGCCGCTTCGCCCCGTCGCTGAACGTGTTCATC 
CTCGCCATGCCGATCAAGAGCCTGGTCGCCAGCCTGCTGCTGGTGCTCTACCTGGGCATCCTCATGGAGCAC 
GCCTACGATGCCCTGCTGCTCGCCGTCGACCCGCTGCGCCTGCTGCGTCCCGTGCTGGAGACGCCATGA