ViewGene
Locus Name:
GeneID:
Location:

GeneID:1195
TrivialName: PA14_60260
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_60260
PAO1 Ortholog Locus:PA4547
Sequence Length:1338
Protein Length:445
Start: 5367452
Stop: 5368789
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07935.1|AE004868_6 (AE004868) two-component response regulator PilR [Pseudomonas aeruginosa PAO1]
Identities = 445/445 (100%), Positives = 445/445 (100%)
Sequence:
ATGAGCCGACAAAAAGCCCTGATCGTCGACGATGAACCGGATATCCGCGAACTGCTGGAAATCACTCTCGGC
CGCATGAAGCTGGACACCCGCAGCGCCCGCAACGTCAAGGAAGCCCGCGAGTTGCTGGCCCGCGAGCCGTTC
GACCTGTGCCTCACCGACATGCGCCTGCCGGACGGCAGCGGCCTCGATCTGGTCCAGTACATCCAGCAGCGC
CATCCACAGACCCCGGTGGCCATGATCACCGCGTACGGCAGCCTGGACACCGCGATCCAGGCGCTCAAGGCC
GGTGCCTTCGACTTCCTCACCAAACCGGTCGACCTCGGTCGCTTGCGGGAGCTGGTGGCAACCGCCCTACGC
TTGCGCAACCCGGAAGCCGAGGAAGCGCCGGTGGACAACCGCCTGCTCGGCGAGTCGCCGCCGATGCGCGCC
CTGCGCAACCAGATCGGCAAGCTGGCGCGCAGCCAGGCGCCGGTCTACATCAGTGGCGAGTCCGGCAGCGGC
AAGGAACTGGTGGCGCGCCTGATCCACGAGCAGGGGCCACGTATCGAGCGGCCGTTCGTGCCGGTGAACTGC
GGCGCGATTCCCTCCGAGCTGATGGAAAGCGAGTTCTTCGGCCACAAGAAAGGCAGCTTCACTGGCGCTATC
GAAGACAAGCAGGGCCTGTTCCAGGCCGCCAGCGGTGGCACCCTGTTCCTCGACGAAGTCGCCGACCTGCCG
ATGGCCATGCAGGTCAAACTGCTCCGGGCGATCCAGGAAAAGGCCGTGCGCGCGGTCGGCGGCCAGCAGGAG
GTCGCCGTCGACGTGCGCATCCTCTGCGCCACCCACAAGGACCTCGCCGCCGAAGTCGGCGCCGGGCGCTTC
CGCCAGGACCTCTACTACCGCCTCAACGTCATCGAGCTGCGCGTACCACCGCTGCGCGAACGCCGCGAGGAC
ATCCCGCTGCTCGCCGAACGCATCCTCAAGCGCCTGGCCGGCGACACCGGCCTGCCGGCCGCCAGGCTGACC
GGCGACGCACAGGAGAAGCTGAAGAACTACCGCTTCCCGGGCAACGTCCGCGAGCTGGAAAACATGCTGGAG
CGCGCCTATACCCTGTGCGAAGACGACCAGATCCAGCCTCACGACCTGCGCCTGGCCGATGCGCCGGGTGCC
AGCCAGGAAGGCGCCGCGAGCCTGAGCGAAATCGACAACCTCGAGGACTACCTGGAAGACATCGAGCGCAAG
CTGATCATGCAGGCACTCGAGGAGACCCGCTGGAACCGCACCGCCGCGGCCCAGCGCCTGGGCCTGACGTTC
CGCTCGATGCGCTACCGCCTGAAAAAGCTGGGCATCGACTGA
Translation:
MSRQKALIVDDEPDIRELLEITLGRMKLDTRSARNVKEARELLAREPFDLCLTDMRLPDGSGLDLVQYIQQR
HPQTPVAMITAYGSLDTAIQALKAGAFDFLTKPVDLGRLRELVATALRLRNPEAEEAPVDNRLLGESPPMRA
LRNQIGKLARSQAPVYISGESGSGKELVARLIHEQGPRIERPFVPVNCGAIPSELMESEFFGHKKGSFTGAI
EDKQGLFQAASGGTLFLDEVADLPMAMQVKLLRAIQEKAVRAVGGQQEVAVDVRILCATHKDLAAEVGAGRF
RQDLYYRLNVIELRVPPLRERREDIPLLAERILKRLAGDTGLPAARLTGDAQEKLKNYRFPGNVRELENMLE
RAYTLCEDDQIQPHDLRLADAPGASQEGAASLSEIDNLEDYLEDIERKLIMQALEETRWNRTAAAQRLGLTF
RSMRYRLKKLGID*
AnnotationID:1204GeneID:1195
AnnotatorUID: diggins
Modification Date/Time: 2005-05-05 06:06:13
Gene Name:pilR
Confidence Code:1
GeneProduct:two-component response regulator PilR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:type 4 fimbriae expression regulatory protein PilR
Functional Category Confidence Code:5
COGs:COG2204
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54365.1| (AE016858) type 4 fimbriae expression regulatory protein pilR
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 446

 Score =  676 bits (1745), Expect = 0.0
 Identities = 345/443 (77%), Positives = 385/443 (86%)

>gb|AAM42367.1| (AE012425) two-component system regulatory protein [Xanthomonas
           campestris pv. campestris str. ATCC 33913]
          Length = 467

 Score =  535 bits (1377), Expect = e-151
 Identities = 291/460 (63%), Positives = 343/460 (74%), Gaps = 18/460 (3%)








 
Structural Features:
COG2204, AtoC, Response regulator containing CheY-like receiver, 
AAA-type ATPase, and DNA-binding domains 
[Signal transduction mechanisms]
CD-Length = 464 residues,  98.3% aligned
Score =  502 bits (1293), Expect = 1e-142
Identities = 227/456 (49%), Positives = 306/456 (67%), Gaps = 11/456 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2393




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19535




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31661




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1195_cdd.html


    		




 
URL:

















    ReferenceID:33005




  
Author/Investigator(s):
        Ishimoto KS, Lory S.





  
Title:
        Identification of pilR, which encodes a transcriptional activator of the Pseudomonas aeruginosa pilin gene.




  
PubMed:
        1317379


MedLine:
        




    
Source:
J Bacteriol. 1992 Jun;174(11):3514-21.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1317379

















    ReferenceID:33006




  
Author/Investigator(s):
        Hobbs M, Collie ES, Free PD, Livingston SP, Mattick JS.





  
Title:
        PilS and PilR, a two-component transcriptional regulatory system controlling expression of type 4 fimbriae in Pseudomonas aeruginosa.




  
PubMed:
        8097014


MedLine:
        




    
Source:
Mol Microbiol. 1993 Mar;7(5):669-82.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8097014









           
Homologs By Global Alignment 

           

       



     
Gene ID:1195
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2152
                           PA4547_tr
                           translation of PA4547
                           445
                           99.99
                           99.99
                           0
                           2241.0
     

     
     
71867
                           emb|CAA78139.1|
                           (Z12154) transcriptional activator of pilA [Pseudomonas aeruginosa]
                           445
                           99.99
                           99.99
                           0
                           2241.0
     

     
     
71866
                           gb|AAG07935.1|AE004868_6
                           (AE004868) two-component response regulator PilR [Pseudomonas aeruginosa PAO1]
                           445
                           99.99
                           99.99
                           0
                           2241.0
     

     
     
71868
                           gb|AAP81269.1|
                           (AY273871) PilR [Pseudomonas aeruginosa]
                           445
                           99.77
                           99.77
                           0
                           2233.0
     

     
     
71870
                           gb|AAA20188.1|
                           (L22436) pilin transcriptional activator [Pseudomonas aeruginosa]
                           446
                           98.87
                           99.10
                           1
                           2210.0
     

     






      

          
GC ORFID: 44197How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4547Glimmer Score: 

          
Start: 4631131Stop: 4632468

          
Length: 1338


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4547 translation of PA4547Homolog Bit Score 867.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3558 (ORF: BLASTX 683.0), t_PA5511 (ORF: BLASTX 298.0), t_PA1945 (ORF: BLASTX 280.0), t_PA2359 (ORF: BLASTX 251.0), t_PA1663 (ORF: BLASTX 251.0), psyr_15may02_Scaffold8_revised_gene7914 (ORF: BLASTX 239.0), t_PA2354 (ORF: BLASTX 236.0), psyr_15may02_Scaffold7_revised_gene7248 (ORF: BLASTX 234.0), psyr_15may02_Scaffold2_revised_gene4053 (ORF: BLASTX 231.0), t_PA2005 (ORF: BLASTX 228.0), t_PA4547 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCCGACAAAAAGCCCTGATCGTCGACGATGAACCGGATATCCGCGAACTGCTGGAAATCACTCTCGGC 
CGCATGAAGCTGGACACCCGCAGCGCCCGCAACGTCAAGGAAGCCCGCGAGTTGCTGGCCCGCGAGCCGTTC 
GACCTGTGCCTCACCGACATGCGCCTGCCGGACGGCAGCGGCCTCGATCTGGTCCAGTACATCCAGCAGCGC 
CATCCACAGACCCCGGTGGCCATGATCACCGCGTACGGCAGCCTGGACACCGCGATCCAGGCGCTCAAGGCC 
GGTGCCTTCGACTTCCTCACCAAACCGGTCGACCTCGGTCGCTTGCGGGAGCTGGTGGCAACCGCCCTACGC 
TTGCGCAACCCGGAAGCCGAGGAAGCGCCGGTGGACAACCGCCTGCTCGGCGAGTCGCCGCCGATGCGCGCC 
CTGCGCAACCAGATCGGCAAGCTGGCGCGCAGCCAGGCGCCGGTCTACATCAGTGGCGAGTCCGGCAGCGGC 
AAGGAACTGGTGGCGCGCCTGATCCACGAGCAGGGGCCACGTATCGAGCGGCCGTTCGTGCCGGTGAACTGC 
GGCGCGATTCCCTCCGAGCTGATGGAAAGCGAGTTCTTCGGCCACAAGAAAGGCAGCTTCACTGGCGCTATC 
GAAGACAAGCAGGGCCTGTTCCAGGCCGCCAGCGGTGGCACCCTGTTCCTCGACGAAGTCGCCGACCTGCCG 
ATGGCCATGCAGGTCAAACTGCTCCGGGCGATCCAGGAAAAGGCCGTGCGCGCGGTCGGCGGCCAGCAGGAG 
GTCGCCGTCGACGTGCGCATCCTCTGCGCCACCCACAAGGACCTCGCCGCCGAAGTCGGCGCCGGGCGCTTC 
CGCCAGGACCTCTACTACCGCCTCAACGTCATCGAGCTGCGCGTACCACCGCTGCGCGAACGCCGCGAGGAC 
ATCCCGCTGCTCGCCGAACGCATCCTCAAGCGCCTGGCCGGCGACACCGGCCTGCCGGCCGCCAGGCTGACC 
GGCGACGCACAGGAGAAGCTGAAGAACTACCGCTTCCCGGGCAACGTCCGCGAGCTGGAAAACATGCTGGAG 
CGCGCCTATACCCTGTGCGAAGACGACCAGATCCAGCCTCACGACCTGCGCCTGGCCGATGCGCCGGGTGCC 
AGCCAGGAAGGCGCCGCGAGCCTGAGCGAAATCGACAACCTCGAGGACTACCTGGAAGACATCGAGCGCAAG 
CTGATCATGCAGGCACTCGAGGAGACCCGCTGGAACCGCACCGCCGCGGCCCAGCGCCTGGGCCTGACGTTC 
CGCTCGATGCGCTACCGCCTGAAAAAGCTGGGCATCGACTGA