ViewGene
Locus Name:
GeneID:
Location:

GeneID:2058
TrivialName: PA14_42660
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42660
PAO1 Ortholog Locus:PA1690
Sequence Length:1050
Protein Length:349
Start: 3793295
Stop: 3794344
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05079.1|AE004596_5 (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
Identities = 347/349 (99%), Positives = 349/349 (100%)
Sequence:
ATGAGCGCCGAGAAGACCGAGCAGCCCACGGCGAAGAAGCTGCGCGACGCCCGCAGGCAGGGCCAGGTGGTG
AAGAGCAAGGAAATTGTCTCCAGCGCGTTGATCCTGTCGCTGGTGGCGCTGCTGATGGGCTTTTCCGACTAC
TACCTGGAGCATCTCGGCAAGCTGCTCCTGCTGCCCGCCGAGTACATCGACCTGCCGTTTCGCCAGGCGCTG
GAGACCATCCTGGAGAACCTTCTCCAGGAACTCCTCTACCTGCTGGCGCCGGTCCTGCTGGTCGCGGCGCTG
GTGGTGGTGCTCAGCCATGTCGGCCAGTACGGCTTCCTGCTCAGCCTCGACAGCGTCAAGCCGGACCTGAAG
AAGATCAACCCGGTGGAGGGCGCGAAGAAGATCTTCTCGATCCGGAGCCTGGTGGAGTTCCTCAAGTCGACC
CTGAAGGTCGCCCTGCTCTCCCTGCTGGTCTGGCTGACCTTGCAGGGCAACCTGGCCAGCCTCCTGCGGATT
CCCGCCTGCGGGCTGGACTGCGTGGCACCGGTGAGCGGGCTGATGCTCAGGCAACTGATGCTGGTCTGCGCG
GTCGGCTTCCTGGCGATTGCCGTCGCCGACTACGCCTTCGAACGCCACCAGCACTACAAGCAGTTGCGCATG
AGCAAGGACGAAGTGAAGCGCGAGTACAAGGAGATGGAGGGCAGCCCGGAGATCAAGAGCAAGCGTCGGCAA
TTCCATCAGGAACTGCAATCGAGCAACCTGCGCGCGGATGTCCGGCGTTCCTCGGTGATCGTCGCCAACCCG
ACCCACGTCGCCATCGGCATACGCTATCGACGCGGCGAAACACCCCTGCCGCTGATCACCCTGAAGCACACC
GACGCCCTGGCCCTGCGGGTCCGGCGCATCGCCGAGGAAGAAGGAATCCCGGTGCTGCAACGAGTTCCGCTG
GCACGGGCGCTGCTGCGCGACGGCAATGTCGACCAGTACATACCGGCGGACCTGATCCAGGCCACCGCCGAA
GTCCTGCGCTGGCTGGAAAGCCAGCAGACGGATACACCCTGA
Translation:
MSAEKTEQPTAKKLRDARRQGQVVKSKEIVSSALILSLVALLMGFSDYYLEHLGKLLLLPAEYIDLPFRQAL
ETILENLLQELLYLLAPVLLVAALVVVLSHVGQYGFLLSLDSVKPDLKKINPVEGAKKIFSIRSLVEFLKST
LKVALLSLLVWLTLQGNLASLLRIPACGLDCVAPVSGLMLRQLMLVCAVGFLAIAVADYAFERHQHYKQLRM
SKDEVKREYKEMEGSPEIKSKRRQFHQELQSSNLRADVRRSSVIVANPTHVAIGIRYRRGETPLPLITLKHT
DALALRVRRIAEEEGIPVLQRVPLARALLRDGNVDQYIPADLIQATAEVLRWLESQQTDTP*
AnnotationID:2066GeneID:2058
AnnotatorUID: diggins
Modification Date/Time: 2005-02-28 05:05:51
Gene Name:pscU
Confidence Code:2
GeneProduct:translocation protein in type III secretion
Cell Localization:()
Synonyms:yscU
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG4792,pfam01312,COG1377
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18037.1| (AY144116) LscU [Photorhabdus luminescens]
          Length = 351

 Score =  502 bits (1292), Expect = e-141
 Identities = 247/349 (70%), Positives = 294/349 (84%)

>gb|AAN37541.1| (AY150843) YscU [Yersinia enterocolitica]
          Length = 354

 Score =  484 bits (1247), Expect = e-136
 Identities = 230/347 (66%), Positives = 295/347 (85%)

>gb|AAC69784.1| (AF074612) type III secretion protein [Yersinia pestis KIM]
          Length = 354

 Score =  484 bits (1245), Expect = e-136
 Identities = 230/347 (66%), Positives = 294/347 (84%)






 
Structural Features:
COG4792, EscU, Type III secretory pathway, component EscU 
[Intracellular trafficking and secretion]
CD-Length = 349 residues, 100.0% aligned
Score =  497 bits (1282), Expect = 6e-142
Identities = 205/349 (58%), Positives = 258/349 (73%)

pfam01312, Bac_export_2, FlhB HrpN YscU SpaS Family. 
CD-Length = 343 residues, 100.0% aligned
Score =  377 bits (969), Expect = 1e-105
Identities = 154/343 (44%), Positives = 217/343 (63%), Gaps = 1/343 (0%)

COG1377, FlhB, Flagellar biosynthesis pathway, component FlhB 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 363 residues,  95.0% aligned
Score =  328 bits (842), Expect = 7e-91
Identities = 137/348 (39%), Positives = 215/348 (61%), Gaps = 8/348 (2%)







   
Genomic Context:






   
Comment:


















    ReferenceID:4119




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21265




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37213




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2058_cdd.html


    		




 
URL:

















    ReferenceID:37865




  
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:2058
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3556
                           PA1690_tr
                           translation of PA1690
                           349
                           99.42
                           99.99
                           0
                           1719.0
     

     
     
109666
                           gb|AAG05079.1|AE004596_5
                           (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
                           349
                           99.42
                           99.99
                           0
                           1719.0
     

     
     
109667
                           emb|CAD56767.1|
                           (AJ516008) ascU protein [Aeromonas salmonicida subsp. salmonicida]
                           352
                           72.44
                           87.78
                           3
                           1338.0
     

     
     
109668
                           gb|AAO18037.1|
                           (AY144116) LscU [Photorhabdus luminescens]
                           351
                           70.37
                           83.76
                           2
                           1292.0
     

     
     
109669
                           emb|CAE16146.1|
                           (BX571871) Type III secretion component protein SctU [Photorhabdus luminescens subsp. laumondii TTO1]
                           351
                           69.80
                           84.04
                           2
                           1288.0
     

     






      

          
GC ORFID: 45060How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1690Glimmer Score: 

          
Start: 1160614Stop: 1159565

          
Length: 1050


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1690 translation of PA1690Homolog Bit Score 666.0

          
Other Homologs:  t_PA1690 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGCCGAGAAGACCGAGCAGCCCACGGCGAAGAAGCTGCGCGACGCCCGCAGGCAGGGCCAGGTGGTG 
AAGAGCAAGGAAATTGTCTCCAGCGCGTTGATCCTGTCGCTGGTGGCGCTGCTGATGGGCTTTTCCGACTAC 
TACCTGGAGCATCTCGGCAAGCTGCTCCTGCTGCCCGCCGAGTACATCGACCTGCCGTTTCGCCAGGCGCTG 
GAGACCATCCTGGAGAACCTTCTCCAGGAACTCCTCTACCTGCTGGCGCCGGTCCTGCTGGTCGCGGCGCTG 
GTGGTGGTGCTCAGCCATGTCGGCCAGTACGGCTTCCTGCTCAGCCTCGACAGCGTCAAGCCGGACCTGAAG 
AAGATCAACCCGGTGGAGGGCGCGAAGAAGATCTTCTCGATCCGGAGCCTGGTGGAGTTCCTCAAGTCGACC 
CTGAAGGTCGCCCTGCTCTCCCTGCTGGTCTGGCTGACCTTGCAGGGCAACCTGGCCAGCCTCCTGCGGATT 
CCCGCCTGCGGGCTGGACTGCGTGGCACCGGTGAGCGGGCTGATGCTCAGGCAACTGATGCTGGTCTGCGCG 
GTCGGCTTCCTGGCGATTGCCGTCGCCGACTACGCCTTCGAACGCCACCAGCACTACAAGCAGTTGCGCATG 
AGCAAGGACGAAGTGAAGCGCGAGTACAAGGAGATGGAGGGCAGCCCGGAGATCAAGAGCAAGCGTCGGCAA 
TTCCATCAGGAACTGCAATCGAGCAACCTGCGCGCGGATGTCCGGCGTTCCTCGGTGATCGTCGCCAACCCG 
ACCCACGTCGCCATCGGCATACGCTATCGACGCGGCGAAACACCCCTGCCGCTGATCACCCTGAAGCACACC 
GACGCCCTGGCCCTGCGGGTCCGGCGCATCGCCGAGGAAGAAGGAATCCCGGTGCTGCAACGAGTTCCGCTG 
GCACGGGCGCTGCTGCGCGACGGCAATGTCGACCAGTACATACCGGCGGACCTGATCCAGGCCACCGCCGAA 
GTCCTGCGCTGGCTGGAAAGCCAGCAGACGGATACACCCTGA