ViewGene
Locus Name:
GeneID:
Location:

GeneID:2347
TrivialName: PA14_35380
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_35380
PAO1 Ortholog Locus:PA2258
Sequence Length:939
Protein Length:312
Start: 3145681
Stop: 3146619
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05646.1|AE004651_8 (AE004651) transcriptional regulator PtxR [Pseudomonas aeruginosa PAO1]
Identities = 311/312 (99%), Positives = 311/312 (99%)
Sequence:
ATGAGCGCCGCCCTGGAGCGATTGAATCATCTGAACCTGAATCACTTGTATGCCTTCGTCGCCGTCGCCGAA
CACAACAGCTTCACCGCCGCGGCGGAGGCCCTGGGCTTGTCGAAATCGCTACTCAGCGAGCAGTTGCGACGC
CTGGAGGCCGACCTCGGGATCCAGTTGCTGACCCGTACCACCCGTCGCATGACCCTTACCGATCGCGGCGAA
CTGCTGTTCGGCGTGGCCCAGCGCATGCTCGGCGAGCTGGACGGCGCGCTCTCCGATGTGCGCGACTTGCAG
GGCGAGCCCAGTGGCCGGTTGCGCATCACCGCGCCGCAGGACTTCGTCAAGTGGCACATCAGCAGCGTTTCC
GCGGCGTTCATCCGGCAGTTTCCCAAGGTCCAGGTGGAAATGCTGGCCGATGACCAGTTCAGCGATCTGGTC
GGCCAGCGCATCGATCTCGCGGTACGTATCGGCTGGCCGCGCGACTCCGGCCTGCATGCCAGCAAGCTGTGC
GACTTCCAGCAGGTTGCCGTGGCGACGCCGGGATACCTCGCCGGCCTGCCGCCGGTGCTCCAGCCGCACGAC
CTGGCGCGTTGCGAATGGATCGGCCATACCCGCCTGAGCACGCCCTGGACCTGGACCTTCGAACGCCAGCGC
GAGCGTGCCACGGTACAGACCCGAGGGCGCCTGCTGGCGAACAACACCCTGGCGGTGTACCGCCTGGTGCTC
GACGGTGCCGGCGTCAGCGTGCTGCCGAGCTTCCTGGTAGCCCGCGAGATCGCCCGCGGACGGCTGGTCCGA
CTGCTGCCCGGTTGGCGCCTGCCGCAGGGCGGCATCTATGCCCTGTACCCCTCGGCGCGCTACATGCCGGTG
CGGGTCAGGGCGTTCATCGAGTCGCTGCGCGAGCATCTCGGTCGCGAGCCGTTCCGCCTGGCGCAGGGCGAA
TGA
Translation:
MSAALERLNHLNLNHLYAFVAVAEHNSFTAAAEALGLSKSLLSEQLRRLEADLGIQLLTRTTRRMTLTDRGE
LLFGVAQRMLGELDGALSDVRDLQGEPSGRLRITAPQDFVKWHISSVSAAFIRQFPKVQVEMLADDQFSDLV
GQRIDLAVRIGWPRDSGLHASKLCDFQQVAVATPGYLAGLPPVLQPHDLARCEWIGHTRLSTPWTWTFERQR
ERATVQTRGRLLANNTLAVYRLVLDGAGVSVLPSFLVAREIARGRLVRLLPGWRLPQGGIYALYPSARYMPV
RVRAFIESLREHLGREPFRLAQGE*
AnnotationID:2355GeneID:2347
AnnotatorUID: diggins
Modification Date/Time: 2005-03-04 07:07:46
Gene Name:ptxR
Confidence Code:1
GeneProduct: transcriptional regulator PtxR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:transcriptional activator of toxA and regA
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:LysR-type transcriptional activator
Functional Category Confidence Code:5
COGs:COG0583,pfam03466
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>dbj|BAB50311.1| (AP003001) transcriptional regulator [Mesorhizobium loti]
          Length = 311

 Score =  225 bits (573), Expect = 3e-58
 Identities = 117/302 (38%), Positives = 180/302 (59%)

>gb|AAO08512.1|AE016813_264 (AE016813) Transcriptional regulator [Vibrio vulnificus CMCP6]
          Length = 307

 Score =  207 bits (527), Expect = 6e-53
 Identities = 110/295 (37%), Positives = 179/295 (60%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  147 bits (372), Expect = 1e-36
Identities = 103/303 (33%), Positives = 151/303 (49%), Gaps = 12/303 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues, 100.0% aligned
Score =  116 bits (291), Expect = 5e-27
Identities = 72/210 (34%), Positives = 99/210 (47%), Gaps = 4/210 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4697




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21843




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32521




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2347_cdd.html


    		




 
URL:

















    ReferenceID:34447




  
Author/Investigator(s):
        Hamood AN, Colmer JA, Ochsner UA, Vasil ML.





  
Title:
        Isolation and characterization of a Pseudomonas aeruginosa gene, ptxR, which positively regulates exotoxin A production.




  
PubMed:
        8843437


MedLine:
        




    
Source:
Mol Microbiol. 1996 Jul;21(1):97-110.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8843437

















    ReferenceID:34448




  
Author/Investigator(s):
        Colmer JA, Hamood AN.





  
Title:
        Molecular analysis of the Pseudomonas aeruginosa regulatory genes ptxR and ptxS.




  
PubMed:
        11683464


MedLine:
        




    
Source:
Can J Microbiol. 2001 Sep;47(9):820-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11683464









           
Homologs By Global Alignment 

           

       



     
Gene ID:2347
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3986
                           PA2258_tr
                           translation of PA2258
                           312
                           99.67
                           99.67
                           0
                           1590.0
     

     
     
120651
                           gb|AAG05646.1|AE004651_8
                           (AE004651) transcriptional regulator PtxR [Pseudomonas aeruginosa PAO1]
                           312
                           99.67
                           99.67
                           0
                           1590.0
     

     
     
120652
                           gb|AAC26481.3|
                           (AF012100) PtxR [Pseudomonas aeruginosa]
                           312
                           99.67
                           99.67
                           0
                           1590.0
     

     
     
120653
                           gb|AAC21675.1|
                           (AF002222) transcriptional activator PtxR [Pseudomonas aeruginosa]
                           312
                           99.35
                           99.35
                           0
                           1579.0
     

     
     
120654
                           gb|AAQ58391.1|
                           (AE016912) transcriptional regulator PtxR [Chromobacterium violaceum ATCC 12472]
                           325
                           41.23
                           56.30
                           26
                           573.0
     

     






      

          
GC ORFID: 45349How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2258Glimmer Score: 

          
Start: 1808235Stop: 1807297

          
Length: 939


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2258 translation of PA2258Homolog Bit Score 617.0

          
Other Homologs:  t_PA2258 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGCCGCCCTGGAGCGATTGAATCATCTGAACCTGAATCACTTGTATGCCTTCGTCGCCGTCGCCGAA 
CACAACAGCTTCACCGCCGCGGCGGAGGCCCTGGGCTTGTCGAAATCGCTACTCAGCGAGCAGTTGCGACGC 
CTGGAGGCCGACCTCGGGATCCAGTTGCTGACCCGTACCACCCGTCGCATGACCCTTACCGATCGCGGCGAA 
CTGCTGTTCGGCGTGGCCCAGCGCATGCTCGGCGAGCTGGACGGCGCGCTCTCCGATGTGCGCGACTTGCAG 
GGCGAGCCCAGTGGCCGGTTGCGCATCACCGCGCCGCAGGACTTCGTCAAGTGGCACATCAGCAGCGTTTCC 
GCGGCGTTCATCCGGCAGTTTCCCAAGGTCCAGGTGGAAATGCTGGCCGATGACCAGTTCAGCGATCTGGTC 
GGCCAGCGCATCGATCTCGCGGTACGTATCGGCTGGCCGCGCGACTCCGGCCTGCATGCCAGCAAGCTGTGC 
GACTTCCAGCAGGTTGCCGTGGCGACGCCGGGATACCTCGCCGGCCTGCCGCCGGTGCTCCAGCCGCACGAC 
CTGGCGCGTTGCGAATGGATCGGCCATACCCGCCTGAGCACGCCCTGGACCTGGACCTTCGAACGCCAGCGC 
GAGCGTGCCACGGTACAGACCCGAGGGCGCCTGCTGGCGAACAACACCCTGGCGGTGTACCGCCTGGTGCTC 
GACGGTGCCGGCGTCAGCGTGCTGCCGAGCTTCCTGGTAGCCCGCGAGATCGCCCGCGGACGGCTGGTCCGA 
CTGCTGCCCGGTTGGCGCCTGCCGCAGGGCGGCATCTATGCCCTGTACCCCTCGGCGCGCTACATGCCGGTG 
CGGGTCAGGGCGTTCATCGAGTCGCTGCGCGAGCATCTCGGTCGCGAGCCGTTCCGCCTGGCGCAGGGCGAA 
TGA