ViewGene
Locus Name:
GeneID:
Location:

GeneID:2229
TrivialName: PA14_58760
AnnotatorUID: urbach
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_58760
PAO1 Ortholog Locus:
Sequence Length:1122
Protein Length:373
Start: 5236082
Stop: 5237203
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07915.1|AE004867_1 (AE004867) still frameshift type 4 fimbrial biogenesis protein PilC [Pseudomonas aeruginosa PAO1]
Identities = 321/373 (86%), Positives = 354/373 (94%)
NOTE: This gene has another possible start at 4499665 (Chromosome 1).
Sequence:
ATGCTGGTGAAGGCTCAACTGCGCAAACAGGGTATCAACCCACTAAAGGTCCGCAAGAAAGGTATCACCCTG
TTTGGGGCAGGGAAGAAGATTAAGCCCATGGACATCGCCCTGTTCACTCGGCAGATGTCTACCATGATGGGT
GCCGGCGTACCGTTACTGCAATCTTTTGACATCATCGGCGAAGGATTCGAAAATCCAAACATGCGCAAGCTA
GTCGATGAGATCAAGCAGGATGTTGCCGCCGGTAACAGCTTAGCCAGTTCACTTCGAAAGAAACCCATTTAC
TTCGATGATCTCTACTGCAACCTGGTCGATGCTGGCGAACAGTCCGGTGCTTTGGAGACATTATTGGATCGG
GTAGCAACTTATAAAGAAAAGACAGAATCCCTGAAAGCCAAAATTAAAAAAGCCATGACTTATCCCATTGCA
GTAATTGTAGTGGCCCTTGTAGTATCGGCGATCCTTCTGATAAAAGTGGTCCCACAGTTCCAGTCCGTATTT
GCAAATTTTGGTGCCGAGTTGCCGGCCTTTACTCAAATGGTCATCAATCTTTCCGAGATGCTTCAAGAGTGG
TGGCTCATAGTGCTTATTGGTCTTTTTGCCGCAGCTTTTGCATTTAGGGAAGCTCATCGGCGCTCGCAAAAA
CTGAGAGATTCAGTAGATCGGGGCCTGCTGAAACTACCTATCATCGGCGGGATACTTTACAAATCAGCTATC
GCCCGCTACGCCCGAACGCTATCCACTACCTTTGCGGCTGGAGTGCCTCTGGTAGAAGCTCTGGACTCCGTT
TCCGGAGCAACTGGCAACGTGGTATTCAAGAATGCCGTTACCAAGATCAAACAAGACGTGTCCAGCGGCATG
CAATTGAACTTTTCCATGCGCACCACCAATGTTTTCCCCAGTATGGCTATCCAGATGGCTGCAATTGGCGAG
GAATCAGGTTCGCTAGATGAGATGTTAGGAAAAGTTGCCGGTTTCTATGAGGAAGAAGTCGATAACGCCGTC
GACAACCTGACAACGTTGATGGAGCCGATGATCATGGCCGTGCTCGGCGTACTGGTCGGCGGCCTGATCATC
GCTATGTATCTACCGATCTTCCAACTGGGTTCCGTTGTGTAA
Translation:
MLVKAQLRKQGINPLKVRKKGITLFGAGKKIKPMDIALFTRQMSTMMGAGVPLLQSFDIIGEGFENPNMRKL
VDEIKQDVAAGNSLASSLRKKPIYFDDLYCNLVDAGEQSGALETLLDRVATYKEKTESLKAKIKKAMTYPIA
VIVVALVVSAILLIKVVPQFQSVFANFGAELPAFTQMVINLSEMLQEWWLIVLIGLFAAAFAFREAHRRSQK
LRDSVDRGLLKLPIIGGILYKSAIARYARTLSTTFAAGVPLVEALDSVSGATGNVVFKNAVTKIKQDVSSGM
QLNFSMRTTNVFPSMAIQMAAIGEESGSLDEMLGKVAGFYEEEVDNAVDNLTTLMEPMIMAVLGVLVGGLII
AMYLPIFQLGSVV*
AnnotationID:2237GeneID:2229
AnnotatorUID: diggins
Modification Date/Time: 2005-05-04 16:04:31
Gene Name:pilC
Confidence Code:1
GeneProduct:type 4 fimbrial biogenesis protein pilC
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(16) Motility & Attachment
Alternate Gene Product Name:pilin biogenesis protein PilC
Functional Category Confidence Code:5
COGs:COG1459,pfam00482
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAG18588.1|AF297457_3 (AF297457) pilin biogenesis protein PilC [Pseudomonas fluorescens]
          Length = 383

 Score =  559 bits (1441), Expect = e-159
 Identities = 279/372 (75%), Positives = 330/372 (88%)

>gb|AAC43997.1| (U20255) TapC [Aeromonas hydrophila]
          Length = 413

 Score =  434 bits (1115), Expect = e-121
 Identities = 212/372 (56%), Positives = 291/372 (78%), Gaps = 1/372 (0%)








 
Structural Features:
COG1459, PulF, Type II secretory pathway, component PulF 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 397 residues,  93.5% aligned
Score =  376 bits (966), Expect = 7e-105
Identities = 163/373 (43%), Positives = 250/373 (67%), Gaps = 2/373 (0%)

pfam00482, GSPII_F, Bacterial type II secretion system protein F domain.
CD-Length = 126 residues, 100.0% aligned
Score =  104 bits (261), Expect = 3e-23
Identities = 52/126 (41%), Positives = 78/126 (61%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4461




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21607




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31572




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2229_cdd.html


    		




 
URL:

















    ReferenceID:32977




  
Author/Investigator(s):
        Choi JY, Sifri CD, Goumnerov BC, Rahme LG, Ausubel FM, Calderwood SB.





  
Title:
        Identification of virulence genes in a pathogenic strain of Pseudomonas aeruginosa by representational difference analysis.




  
PubMed:
        11807055


MedLine:
        




    
Source:
J Bacteriol. 2002 Feb;184(4):952-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11807055

















    ReferenceID:32978




  
Author/Investigator(s):
        Feldman M, Bryan R, Rajan S, Scheffler L, Brunnert S, Tang H, Prince A.





  
Title:
        Role of flagella in pathogenesis of Pseudomonas aeruginosa pulmonary infection.




  
PubMed:
        9423837


MedLine:
        




    
Source:
Infect Immun. 1998 Jan;66(1):43-51.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9423837

















    ReferenceID:32979




  
Author/Investigator(s):
        Alm RA, Hallinan JP, Watson AA, Mattick JS.





  
Title:
        Fimbrial biogenesis genes of Pseudomonas aeruginosa: pilW and pilX increase the similarity of type 4 fimbriae to the GSP protein-secretion systems and pilY1 encodes a gonococcal PilC homologue.




  
PubMed:
        8899718


MedLine:
        




    
Source:
Mol Microbiol. 1996 Oct;22(1):161-73.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8899718









           
Homologs By Global Alignment 

           

       



     
Gene ID:2229
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3785
                           PA4527_tr
                           translation of PA4527
                           374
                           85.82
                           94.65
                           1
                           1644.0
     

     
     
116660
                           gb|AAG07915.1|AE004867_1
                           (AE004867) still frameshift type 4 fimbrial biogenesis protein PilC [Pseudomonas aeruginosa PAO1]
                           374
                           85.82
                           94.65
                           1
                           1644.0
     

     
     
116661
                           gb|AAA25733.1|
                           (M32066) pilin biogenesis protein (pilC) [Pseudomonas aeruginosa]
                           406
                           78.32
                           86.69
                           33
                           1637.0
     

     
     
116662
                           gb|AAL12241.1|
                           (AY049070) pilin biogenesis protein [Pseudomonas aeruginosa]
                           405
                           78.27
                           79.01
                           66
                           1506.0
     

     
     
116663
                           emb|CAA10650.1|
                           (AJ132364) PilC protein [Pseudomonas stutzeri]
                           405
                           73.33
                           82.22
                           32
                           1502.0
     

     






      

          
GC ORFID: 45231How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4527Glimmer Score: 

          
Start: 4499761Stop: 4500882

          
Length: 1122


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4527 translation of PA4527Homolog Bit Score 637.0

          
Other Homologs:  psyr_15may02_Scaffold15_revised_gene2536 (ORF: BLASTX 607.0)

          
GC ORF Sequence

           
ATGCTGGTGAAGGCTCAACTGCGCAAACAGGGTATCAACCCACTAAAGGTCCGCAAGAAAGGTATCACCCTG 
TTTGGGGCAGGGAAGAAGATTAAGCCCATGGACATCGCCCTGTTCACTCGGCAGATGTCTACCATGATGGGT 
GCCGGCGTACCGTTACTGCAATCTTTTGACATCATCGGCGAAGGATTCGAAAATCCAAACATGCGCAAGCTA 
GTCGATGAGATCAAGCAGGATGTTGCCGCCGGTAACAGCTTAGCCAGTTCACTTCGAAAGAAACCCATTTAC 
TTCGATGATCTCTACTGCAACCTGGTCGATGCTGGCGAACAGTCCGGTGCTTTGGAGACATTATTGGATCGG 
GTAGCAACTTATAAAGAAAAGACAGAATCCCTGAAAGCCAAAATTAAAAAAGCCATGACTTATCCCATTGCA 
GTAATTGTAGTGGCCCTTGTAGTATCGGCGATCCTTCTGATAAAAGTGGTCCCACAGTTCCAGTCCGTATTT 
GCAAATTTTGGTGCCGAGTTGCCGGCCTTTACTCAAATGGTCATCAATCTTTCCGAGATGCTTCAAGAGTGG 
TGGCTCATAGTGCTTATTGGTCTTTTTGCCGCAGCTTTTGCATTTAGGGAAGCTCATCGGCGCTCGCAAAAA 
CTGAGAGATTCAGTAGATCGGGGCCTGCTGAAACTACCTATCATCGGCGGGATACTTTACAAATCAGCTATC 
GCCCGCTACGCCCGAACGCTATCCACTACCTTTGCGGCTGGAGTGCCTCTGGTAGAAGCTCTGGACTCCGTT 
TCCGGAGCAACTGGCAACGTGGTATTCAAGAATGCCGTTACCAAGATCAAACAAGACGTGTCCAGCGGCATG 
CAATTGAACTTTTCCATGCGCACCACCAATGTTTTCCCCAGTATGGCTATCCAGATGGCTGCAATTGGCGAG 
GAATCAGGTTCGCTAGATGAGATGTTAGGAAAAGTTGCCGGTTTCTATGAGGAAGAAGTCGATAACGCCGTC 
GACAACCTGACAACGTTGATGGAGCCGATGATCATGGCCGTGCTCGGCGTACTGGTCGGCGGCCTGATCATC 
GCTATGTATCTACCGATCTTCCAACTGGGTTCCGTTGTGTAA