ViewGene
Locus Name:
GeneID:
Location:

GeneID:1222
TrivialName: PA14_42570
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42570
PAO1 Ortholog Locus:PA1697
Sequence Length:1323
Protein Length:440
Start: 3787767
Stop: 3789089
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAB86534.1| (AF010151) PscN [Pseudomonas aeruginosa]
Identities = 440/440 (100%), Positives = 440/440 (100%)
Sequence:
ATGCCCGCGCCTCTCTCTCCTCTCATCGTCCGGATGCGCCACGCCATCGAAGGCTGCCGGCCGATCCAGATC
CGCGGGCGGGTCACCCAGGTCACCGGAACCCTGCTCAAGGCCGTGGTGCCCGGCGTGCGCATCGGCGAACTC
TGCCAGTTGCGCAATCCCGACCAGAGCCTGGCGCTGCTCGCCGAGGTCATCGGCTTCCAGCAGCACCAGGCG
CTGCTCACCCCGCTCGGCGAGATGCTCGGGGTTTCCTCCAACACCGAAGTCAGCCCTACCGGCGGCATGCAT
CGCGTGGCGGTTGGCGAGCACCTGCTCGGGCAGGTGCTCGACGGCCTCGGCCGCCCCTTCGACGGCAGCCCG
CCGGCCGAGCCGGCGGCCTGGTATCCGGTCTACCGGGATGCCCCGCAACCGATGAGCCGGCGCCTGATAGAG
CGGCCGCTATCGCTGGGTGTGCGCGCCATCGACGGCCTGCTGACCTGCGGCGAAGGCCAGCGCATGGGCATC
TTCGCTGCCGCCGGCGGCGGCAAGAGCACCCTGCTGGCCAGCCTGGTGCGCAATGCCGAGGTGGATGTGACG
GTACTCGCCCTGGTCGGCGAACGCGGTCGCGAAGTCCGCGAGTTCATCGAAAGCGACCTCGGCGAACAGGGG
CTGCGCCGCTCGGTGCTGGTGGTCGCCACTTCCGACCGACCGGCGATGGAGCGCGCCAAGGCCGGTTTCGTC
GCCACCAGCATCGCCGAGTATTTCCGCGACCAGGGACGCCGCGTCCTGCTGCTGATGGACTCGCTGACCCGC
TTCGCCAGGGCCCAGCGCGAAATCGGCCTGGCGGCCGGTGAACCGCCCACACGCCGCGGCTATCCGCCATCG
GTGTTCGCCGCGCTGCCACGCCTGATGGAGCGTGCCGGGCAATCCGAGCGGGGCTCGATCACCGCGCTCTAC
ACCGTGCTGGTGGAAGGCGACGACATGAGCGAGCCGGTGGCCGACGAGACCCGCTCGATTCTCGACGGGCAC
ATCGTGCTGTCGCGCAAGCTGGCCGCCGCCAACCACTATCCGGCCATCGACGTGCTGCACTCGGTGAGCCGG
GTCATGAACCAGATCGTCGACGACGATCAGCGCCATGCGGCCGGACGCTTGCGCGAATGGCTGGCGAAGTAC
GAGGAAGTCGAGTTGCTGCTGAAGATCGGCGAATACCAGAAAGGCCAGGACAGCGAAGCCGACCAGGCCATC
GAGAAGATCGGGGCGATCCGCCAGTGGCTGCGCCAGGGTACCCACGAAACCAGCGATTACGCACAGGCCTGT
GCGCAGTTGCGGAGCCTCTGCGCATGA
Translation:
MPAPLSPLIVRMRHAIEGCRPIQIRGRVTQVTGTLLKAVVPGVRIGELCQLRNPDQSLALLAEVIGFQQHQA
LLTPLGEMLGVSSNTEVSPTGGMHRVAVGEHLLGQVLDGLGRPFDGSPPAEPAAWYPVYRDAPQPMSRRLIE
RPLSLGVRAIDGLLTCGEGQRMGIFAAAGGGKSTLLASLVRNAEVDVTVLALVGERGREVREFIESDLGEQG
LRRSVLVVATSDRPAMERAKAGFVATSIAEYFRDQGRRVLLLMDSLTRFARAQREIGLAAGEPPTRRGYPPS
VFAALPRLMERAGQSERGSITALYTVLVEGDDMSEPVADETRSILDGHIVLSRKLAAANHYPAIDVLHSVSR
VMNQIVDDDQRHAAGRLREWLAKYEEVELLLKIGEYQKGQDSEADQAIEKIGAIRQWLRQGTHETSDYAQAC
AQLRSLCA*
AnnotationID:1231GeneID:1222
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 08:08:52
Gene Name:pscN
Confidence Code:2
GeneProduct:ATP synthase in type III secretion system
Cell Localization:()
Synonyms:yscN
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1157,cd01136,pfam00006
Secondary Functional Category(ies):
EC Number:3.6.3.14
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18044.1| (AY144116) LscN [Photorhabdus luminescens]
          Length = 440

 Score =  709 bits (1831), Expect = 0.0
 Identities = 359/428 (83%), Positives = 388/428 (90%)

>gb|AAD16824.1| (AF102990) ATPase YscN [Yersinia enterocolitica]
          Length = 439

 Score =  699 bits (1804), Expect = 0.0
 Identities = 358/427 (83%), Positives = 385/427 (90%)

>gb|AAC62564.1| (AF053946) Yops secretion ATPase YscN homolog [Yersinia pestis KIM]
          Length = 439

 Score =  698 bits (1801), Expect = 0.0
 Identities = 357/427 (83%), Positives = 385/427 (90%)








 
Structural Features:
COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 441 residues,  99.8% aligned
Score =  641 bits (1656), Expect = 0.0
Identities = 262/440 (59%), Positives = 320/440 (72%)

cd01136, Flagellum-specific ATPase/type III secretory pathway 
virulence-related protein.
CD-Length = 326 residues,  99.7% aligned
Score =  479 bits (1234), Expect = 3e-136

pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, 
nucleotide-binding domain. 
CD-Length = 178 residues,  99.4% aligned
Score =  261 bits (668), Expect = 1e-70
Identities = 109/177 (61%), Positives = 126/177 (71%), Gaps = 2/177 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2447




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19590




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37252




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1222_cdd.html


    		




 
URL:

















    ReferenceID:37856




  
Author/Investigator(s):
        Woestyn S, Allaoui A, Wattiau P, Cornelis GR.





  
Title:
        YscN, the putative energizer of the Yersinia Yop secretion machinery.




  
PubMed:
        8132449


MedLine:
        




    
Source:
J Bacteriol. 1994 Mar;176(6):1561-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8132449

















    ReferenceID:37857




  
Author/Investigator(s):
        Woestyn S, Allaoui A, Wattiau P, Cornelis GR.





  
Title:
        YscN, the putative energizer of the Yersinia Yop secretion machinery.




  
PubMed:
        8132449


MedLine:
        




    
Source:
J Bacteriol. 1994 Mar;176(6):1561-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8132449

















    ReferenceID:37860




  
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:1222
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
73294
                           gb|AAB86534.1|
                           (AF010151) PscN [Pseudomonas aeruginosa]
                           440
                           99.99
                           99.99
                           0
                           2226.0
     

     
     
2215
                           PA1697_tr
                           translation of PA1697
                           440
                           99.77
                           99.99
                           0
                           2222.0
     

     
     
73295
                           gb|AAG05086.1|AE004596_12
                           (AE004596) ATP synthase in type III secretion system [Pseudomonas aeruginosa PAO1]
                           440
                           99.77
                           99.99
                           0
                           2222.0
     

     
     
73296
                           emb|CAE16139.1|
                           (BX571871) Type III secretion component protein SctN [Photorhabdus luminescens subsp. laumondii TTO1]
                           440
                           82.27
                           89.09
                           0
                           1837.0
     

     
     
73297
                           gb|AAO18044.1|
                           (AY144116) LscN [Photorhabdus luminescens]
                           440
                           82.04
                           88.86
                           0
                           1829.0
     

     






      

          
GC ORFID: 44224How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1697Glimmer Score: 

          
Start: 1166142Stop: 1164820

          
Length: 1323


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1697 translation of PA1697Homolog Bit Score 860.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4880 (ORF: BLASTX 414.0), t_PA1104 (ORF: BLASTX 375.0), psyr_15may02_Scaffold8_revised_gene7921 (ORF: BLASTX 368.0), t_PA1697 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCCCGCGCCTCTCTCTCCTCTCATCGTCCGGATGCGCCACGCCATCGAAGGCTGCCGGCCGATCCAGATC 
CGCGGGCGGGTCACCCAGGTCACCGGAACCCTGCTCAAGGCCGTGGTGCCCGGCGTGCGCATCGGCGAACTC 
TGCCAGTTGCGCAATCCCGACCAGAGCCTGGCGCTGCTCGCCGAGGTCATCGGCTTCCAGCAGCACCAGGCG 
CTGCTCACCCCGCTCGGCGAGATGCTCGGGGTTTCCTCCAACACCGAAGTCAGCCCTACCGGCGGCATGCAT 
CGCGTGGCGGTTGGCGAGCACCTGCTCGGGCAGGTGCTCGACGGCCTCGGCCGCCCCTTCGACGGCAGCCCG 
CCGGCCGAGCCGGCGGCCTGGTATCCGGTCTACCGGGATGCCCCGCAACCGATGAGCCGGCGCCTGATAGAG 
CGGCCGCTATCGCTGGGTGTGCGCGCCATCGACGGCCTGCTGACCTGCGGCGAAGGCCAGCGCATGGGCATC 
TTCGCTGCCGCCGGCGGCGGCAAGAGCACCCTGCTGGCCAGCCTGGTGCGCAATGCCGAGGTGGATGTGACG 
GTACTCGCCCTGGTCGGCGAACGCGGTCGCGAAGTCCGCGAGTTCATCGAAAGCGACCTCGGCGAACAGGGG 
CTGCGCCGCTCGGTGCTGGTGGTCGCCACTTCCGACCGACCGGCGATGGAGCGCGCCAAGGCCGGTTTCGTC 
GCCACCAGCATCGCCGAGTATTTCCGCGACCAGGGACGCCGCGTCCTGCTGCTGATGGACTCGCTGACCCGC 
TTCGCCAGGGCCCAGCGCGAAATCGGCCTGGCGGCCGGTGAACCGCCCACACGCCGCGGCTATCCGCCATCG 
GTGTTCGCCGCGCTGCCACGCCTGATGGAGCGTGCCGGGCAATCCGAGCGGGGCTCGATCACCGCGCTCTAC 
ACCGTGCTGGTGGAAGGCGACGACATGAGCGAGCCGGTGGCCGACGAGACCCGCTCGATTCTCGACGGGCAC 
ATCGTGCTGTCGCGCAAGCTGGCCGCCGCCAACCACTATCCGGCCATCGACGTGCTGCACTCGGTGAGCCGG 
GTCATGAACCAGATCGTCGACGACGATCAGCGCCATGCGGCCGGACGCTTGCGCGAATGGCTGGCGAAGTAC 
GAGGAAGTCGAGTTGCTGCTGAAGATCGGCGAATACCAGAAAGGCCAGGACAGCGAAGCCGACCAGGCCATC 
GAGAAGATCGGGGCGATCCGCCAGTGGCTGCGCCAGGGTACCCACGAAACCAGCGATTACGCACAGGCCTGT 
GCGCAGTTGCGGAGCCTCTGCGCATGA