ViewGene
Locus Name:
GeneID:
Location:

GeneID:152
TrivialName: PA14_11080
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_11080
PAO1 Ortholog Locus:PA4084
Sequence Length:2535
Protein Length:844
Start: 958480
Stop: 961014
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07471.1|AE004824_6 (AE004824) usher CupB3 [Pseudomonas aeruginosa PAO1]
Identities = 838/844 (99%), Positives = 841/844 (99%)
Sequence:
GTGGCCGTTGCGTCACCGGCCGGCGGGTTGGACGCACCGTCGCGGCGGATCGTCTTCGACGCGCAGATGCTG
GCCCTGGGGCCGGGCGGACGCTCGATCGATACATCGCGTTTCGAGCGCGGCGACGTCATCGAGCCAGGCCGC
TATCGCCTCGACCTGCTGCTCAACAGCCGATGGCGCGGTGTCGAGGAAGTCGAGCTGCGCCGCCAGCCGGGG
CGGGAAAGCGCGGTCTTCTGCTACGACCGGGGCCTGCTGGAGCGGGCGGGCATCGACCTGGAGAAGAGCGCG
CGTGGCCAGGATCGTTCCTCGGCTCGCGATCCTCTGCCCGAAGGTTTGCACTGCGACCCTCTCGAGCGCTAT
GTGCCGGGGGCCCGGGTCAAGCTCGATATCGCCGAGCAGTCGATCTATATCTCGGTGCCCAGCTATTACCTG
AGCCTGGATTCGTCGAAGACCTATGTCGATCCGGCGAGCTGGGACAGCGGCATTTCCGCCGCCTTGCTCAAC
TACAACAGCAATCTCCACGTCAGGGAAAACCACGGCAGGAGCGCCACCAGCGGCTATGCCGGGATGAACGCC
GGCTTCAATTTCGGGCGGGCGCGCCTGCGCCACAACGGCACGGCCACCTGGTCGCGCCGCATGGGCAGCCAT
TACCAGCGTAGCGCAACCTATGTGCAGACCGACCTGCCGGCCTGGCGTGCGCAGTTATTGCTGGGAGAAAAC
TCCACCAGCAGCGAGTTCTTCGATGCGGTGTCCTTCCGTGGCGTGCAGCTTTCCAGCGATGACCGGATGCTG
CCGGATTCGCTGCGCTACTACGCTCCGGTGGTCCGTGGGACCGCCAGTACCAATGCGCGGGTATCGGTCTAC
CAGCGTGGCTACCTCATCTACGAAACCACGGTGGCACCCGGGGCGTTCGCTCTCGACGAACTGCAGACCGCC
AGCTATGGCGGGGACCTGGAAGTGCGGGTGACCGAAGCCAGCGGGGAAGTCCGCAGTTTCATCGTGCCGTTC
GCCACCACCGTACAACTGCTGCGCCCCGGGACCACGCGCTACAGCCTGACGGCCGGGCGGCTCAACGATCCC
AGCCTGGAGCGTCGCCCGAACATGCTGCAGGGCGTCTACCAGCGCGGCCTGGGCAACGACGTCACCGCATAC
GCGGGCGGGGCCTTCACCGGCAGCTACATGTCCGGGTTGATGGGCGCGGCGCTGAACACGCCGGTGGGCGGA
TTCTCCGGTGACGTGACGCTGGCGCGTACCGAGGTTCCCGGCGACGACCGCCTTAGCGGCTCCAGCTACCGT
CTCGCCTACAGCAAGAACCTGCCGAACACCGGCACCAACTTTTCGCTGCTCGCCTATCGTTACTCCACCGGT
GGCTATCTCGGCCTGCGCGACGCGGCCTTCATGCAGGACCGGGTAGAGCGAGGCGAGCCGCTGGAGTCGTTC
TCGCGCTTGCGCAACCGTCTCGACGCCAACATCAGCCAGCAACTGGGCAACGGCGGCAACCTGTACCTGAAC
GGCTCCTCGCAGCGCTACTGGAGCGGCGGCGGGCGGGCGGTCAACTTCTCCGTCGGCTACAGCAACCAGTGG
CGCGACGTCAGTTACTCCATTTCCGCGCAACGCCTGCGCAGCCACTACGAAGGCTTTTCCAGCGGTGACAAG
CGCGGCGAGACCAGCACGCTGTTCAGCCTGAACCTGTCCATTCCGCTGGGCGGCGCGGGACGCGGGTCGCCG
ACCCTGAGCAGCTACCTGACCCGCGACAGCAACAGCGGAACCCAGCTCACCAGCGGGGTTTCCGGCATGCTG
GGCAAGCGTGGCGAGGCCTCCTACTCGCTGTCGGCCTCCCATGACCGCGACAGCCGGCAGACCTCGAAGAGC
GCCAGCCTCGACTATCGACTGCCGCAGGTCGAACTCGGCTCCAGCCTCTCGCAGGGACCGGGCTATCGGCAG
TTGTCGGTCAAGGCCGCGGGGGGCCTGGTCGCGCACAGCGGCGGGATCACCGCGGCACAAACCCTGGGCGAG
ACGATCGGCCTGGTCCACGCGCCAAACGCCAGGGGCGCGGGTGCCGGCTACTCGGGAAGCCGGGTCGACCGC
CACGGCTATGCGGTGATTCCCAACCTGCTGCCCTACCAGTTGAACAGCGTCGACCTCGACCCCAACGGCATG
GCCGACGAGATCGAGCTGAGGTCCAGTTCGCGCAACGTGGCGCCCACCGCCGGAGCTGTGGTGCGCCTCGAC
TATCCGACGCGGGTGGCGAGGCCCTTGCTGGTGGATAGCCGGATGCCCAGCGGCGAGCCCCTGCCGTTCGCC
GCGGAAGTGCTCGATGCCCACAGCGGGCAGCCGGTGGGCGCCGTCGGCCAGGGCAGCCGCCTGGTGCTGCGG
GTCGAGCAGGATCGCGGCTCGGTTCGGGTGCGCTGGGGCAACGAGCCGCAGCAGCAGTGCCTGGTCGACTAT
GCGCTGGGCCCGCGCGAGACGACGCCTCCCGTCCTGCAACTGGCATGTCGCCCGGCGTCGGCCGCCGACCGG
GAGCGCACGCTGTGA
Translation:
MAVASPAGGLDAPSRRIVFDAQMLALGPGGRSIDTSRFERGDVIEPGRYRLDLLLNSRWRGVEEVELRRQPG
RESAVFCYDRGLLERAGIDLEKSARGQDRSSARDPLPEGLHCDPLERYVPGARVKLDIAEQSIYISVPSYYL
SLDSSKTYVDPASWDSGISAALLNYNSNLHVRENHGRSATSGYAGMNAGFNFGRARLRHNGTATWSRRMGSH
YQRSATYVQTDLPAWRAQLLLGENSTSSEFFDAVSFRGVQLSSDDRMLPDSLRYYAPVVRGTASTNARVSVY
QRGYLIYETTVAPGAFALDELQTASYGGDLEVRVTEASGEVRSFIVPFATTVQLLRPGTTRYSLTAGRLNDP
SLERRPNMLQGVYQRGLGNDVTAYAGGAFTGSYMSGLMGAALNTPVGGFSGDVTLARTEVPGDDRLSGSSYR
LAYSKNLPNTGTNFSLLAYRYSTGGYLGLRDAAFMQDRVERGEPLESFSRLRNRLDANISQQLGNGGNLYLN
GSSQRYWSGGGRAVNFSVGYSNQWRDVSYSISAQRLRSHYEGFSSGDKRGETSTLFSLNLSIPLGGAGRGSP
TLSSYLTRDSNSGTQLTSGVSGMLGKRGEASYSLSASHDRDSRQTSKSASLDYRLPQVELGSSLSQGPGYRQ
LSVKAAGGLVAHSGGITAAQTLGETIGLVHAPNARGAGAGYSGSRVDRHGYAVIPNLLPYQLNSVDLDPNGM
ADEIELRSSSRNVAPTAGAVVRLDYPTRVARPLLVDSRMPSGEPLPFAAEVLDAHSGQPVGAVGQGSRLVLR
VEQDRGSVRVRWGNEPQQQCLVDYALGPRETTPPVLQLACRPASAADRERTL*
AnnotationID:162GeneID:152
AnnotatorUID: diggins
Modification Date/Time: 2005-03-30 08:08:07
Gene Name:cupB3
Confidence Code:2
GeneProduct:usher CupB3
Cell Localization:()
Synonyms:fimD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(16) Motility & Attachment
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG3188,pfam00577
Secondary Functional Category(ies):intracellular trafficking and secretion
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAF82894.1|AE003862_7 (AE003862) outer membrane usher protein precursor [Xylella
           fastidiosa 9a5c]
          Length = 901

 Score =  583 bits (1504), Expect = e-165
 Identities = 327/814 (40%), Positives = 480/814 (58%), Gaps = 35/814 (4%)

>gb|AAM85438.1|AE013790_7 (AE013790) putative usher protein [Yersinia pestis KIM]
          Length = 870

 Score =  526 bits (1356), Expect = e-148
 Identities = 306/810 (37%), Positives = 454/810 (56%), Gaps = 41/810 (5%)






 
Structural Features:
COG3188, FimD, P pilus assembly protein, porin PapC 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 835 residues,  98.3% aligned
Score =  730 bits (1886), Expect = 0.0
Identities = 365/842 (43%), Positives = 481/842 (57%), Gaps = 30/842 (3%)

pfam00577, Usher, Fimbrial Usher protein.
CD-Length = 783 residues,  99.6% aligned
Score =  654 bits (1689), Expect = 0.0 
Identities = 320/807 (39%), Positives = 437/807 (54%), Gaps = 34/807 (4%)







   
Genomic Context:






   
Comment:


















    ReferenceID:14067




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17449




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36831




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:152_cdd.html


    		




 
URL:

















    ReferenceID:36938




  
Author/Investigator(s):
        Vallet I, Olson JW, Lory S, Lazdunski A, Filloux A.





  
Title:
        The chaperone/usher pathways of Pseudomonas aeruginosa: identification of fimbrial gene clusters (cup) and their involvement in biofilm formation.




  
PubMed:
        11381121


MedLine:
        




    
Source:
Proc Natl Acad Sci U S A. 2001 Jun 5;98(12):6911-6. Epub 2001 May 29.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=11381121

















    ReferenceID:36940




  
Author/Investigator(s):
        Klemm P, Jorgensen BJ, van Die I, de Ree H, Bergmans H.





  
Title:
        The fim genes responsible for synthesis of type 1 fimbriae in Escherichia coli, cloning and genetic organization.




  
PubMed:
        2863734


MedLine:
        




    
Source:
Mol Gen Genet. 1985;199(3):410-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2863734









           
Homologs By Global Alignment 

           

       



     
Gene ID:152
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
278
                           PA4084_tr
                           translation of PA4084
                           844
                           99.28
                           99.64
                           0
                           4307.0
     

     
     
18249
                           gb|AAG07471.1|AE004824_6
                           (AE004824) usher CupB3 [Pseudomonas aeruginosa PAO1]
                           844
                           99.17
                           99.64
                           0
                           4304.0
     

     
     
18251
                           gb|AAO27960.1|
                           (AE012553) outer membrane usher protein precursor [Xylella fastidiosa Temecula1]
                           883
                           38.05
                           55.83
                           85
                           1534.0
     

     
     
18250
                           gb|AAF82894.1|AE003862_7
                           (AE003862) outer membrane usher protein precursor [Xylella fastidiosa 9a5c]
                           947
                           35.48
                           52.16
                           149
                           1537.0
     

     






      

          
GC ORFID: 43154How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4084Glimmer Score: 

          
Start: 3995457Stop: 3992923

          
Length: 2535


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4084 translation of PA4084Homolog Bit Score 1663.0

          
Other Homologs:  t_PA4084 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGCCGTTGCGTCACCGGCCGGCGGGTTGGACGCACCGTCGCGGCGGATCGTCTTCGACGCGCAGATGCTG 
GCCCTGGGGCCGGGCGGACGCTCGATCGATACATCGCGTTTCGAGCGCGGCGACGTCATCGAGCCAGGCCGC 
TATCGCCTCGACCTGCTGCTCAACAGCCGATGGCGCGGTGTCGAGGAAGTCGAGCTGCGCCGCCAGCCGGGG 
CGGGAAAGCGCGGTCTTCTGCTACGACCGGGGCCTGCTGGAGCGGGCGGGCATCGACCTGGAGAAGAGCGCG 
CGTGGCCAGGATCGTTCCTCGGCTCGCGATCCTCTGCCCGAAGGTTTGCACTGCGACCCTCTCGAGCGCTAT 
GTGCCGGGGGCCCGGGTCAAGCTCGATATCGCCGAGCAGTCGATCTATATCTCGGTGCCCAGCTATTACCTG 
AGCCTGGATTCGTCGAAGACCTATGTCGATCCGGCGAGCTGGGACAGCGGCATTTCCGCCGCCTTGCTCAAC 
TACAACAGCAATCTCCACGTCAGGGAAAACCACGGCAGGAGCGCCACCAGCGGCTATGCCGGGATGAACGCC 
GGCTTCAATTTCGGGCGGGCGCGCCTGCGCCACAACGGCACGGCCACCTGGTCGCGCCGCATGGGCAGCCAT 
TACCAGCGTAGCGCAACCTATGTGCAGACCGACCTGCCGGCCTGGCGTGCGCAGTTATTGCTGGGAGAAAAC 
TCCACCAGCAGCGAGTTCTTCGATGCGGTGTCCTTCCGTGGCGTGCAGCTTTCCAGCGATGACCGGATGCTG 
CCGGATTCGCTGCGCTACTACGCTCCGGTGGTCCGTGGGACCGCCAGTACCAATGCGCGGGTATCGGTCTAC 
CAGCGTGGCTACCTCATCTACGAAACCACGGTGGCACCCGGGGCGTTCGCTCTCGACGAACTGCAGACCGCC 
AGCTATGGCGGGGACCTGGAAGTGCGGGTGACCGAAGCCAGCGGGGAAGTCCGCAGTTTCATCGTGCCGTTC 
GCCACCACCGTACAACTGCTGCGCCCCGGGACCACGCGCTACAGCCTGACGGCCGGGCGGCTCAACGATCCC 
AGCCTGGAGCGTCGCCCGAACATGCTGCAGGGCGTCTACCAGCGCGGCCTGGGCAACGACGTCACCGCATAC 
GCGGGCGGGGCCTTCACCGGCAGCTACATGTCCGGGTTGATGGGCGCGGCGCTGAACACGCCGGTGGGCGGA 
TTCTCCGGTGACGTGACGCTGGCGCGTACCGAGGTTCCCGGCGACGACCGCCTTAGCGGCTCCAGCTACCGT 
CTCGCCTACAGCAAGAACCTGCCGAACACCGGCACCAACTTTTCGCTGCTCGCCTATCGTTACTCCACCGGT 
GGCTATCTCGGCCTGCGCGACGCGGCCTTCATGCAGGACCGGGTAGAGCGAGGCGAGCCGCTGGAGTCGTTC 
TCGCGCTTGCGCAACCGTCTCGACGCCAACATCAGCCAGCAACTGGGCAACGGCGGCAACCTGTACCTGAAC 
GGCTCCTCGCAGCGCTACTGGAGCGGCGGCGGGCGGGCGGTCAACTTCTCCGTCGGCTACAGCAACCAGTGG 
CGCGACGTCAGTTACTCCATTTCCGCGCAACGCCTGCGCAGCCACTACGAAGGCTTTTCCAGCGGTGACAAG 
CGCGGCGAGACCAGCACGCTGTTCAGCCTGAACCTGTCCATTCCGCTGGGCGGCGCGGGACGCGGGTCGCCG 
ACCCTGAGCAGCTACCTGACCCGCGACAGCAACAGCGGAACCCAGCTCACCAGCGGGGTTTCCGGCATGCTG 
GGCAAGCGTGGCGAGGCCTCCTACTCGCTGTCGGCCTCCCATGACCGCGACAGCCGGCAGACCTCGAAGAGC 
GCCAGCCTCGACTATCGACTGCCGCAGGTCGAACTCGGCTCCAGCCTCTCGCAGGGACCGGGCTATCGGCAG 
TTGTCGGTCAAGGCCGCGGGGGGCCTGGTCGCGCACAGCGGCGGGATCACCGCGGCACAAACCCTGGGCGAG 
ACGATCGGCCTGGTCCACGCGCCAAACGCCAGGGGCGCGGGTGCCGGCTACTCGGGAAGCCGGGTCGACCGC 
CACGGCTATGCGGTGATTCCCAACCTGCTGCCCTACCAGTTGAACAGCGTCGACCTCGACCCCAACGGCATG 
GCCGACGAGATCGAGCTGAGGTCCAGTTCGCGCAACGTGGCGCCCACCGCCGGAGCTGTGGTGCGCCTCGAC 
TATCCGACGCGGGTGGCGAGGCCCTTGCTGGTGGATAGCCGGATGCCCAGCGGCGAGCCCCTGCCGTTCGCC 
GCGGAAGTGCTCGATGCCCACAGCGGGCAGCCGGTGGGCGCCGTCGGCCAGGGCAGCCGCCTGGTGCTGCGG 
GTCGAGCAGGATCGCGGCTCGGTTCGGGTGCGCTGGGGCAACGAGCCGCAGCAGCAGTGCCTGGTCGACTAT 
GCGCTGGGCCCGCGCGAGACGACGCCTCCCGTCCTGCAACTGGCATGTCGCCCGGCGTCGGCCGCCGACCGG 
GAGCGCACGCTGTGA