ViewGene
Locus Name:
GeneID:
Location:

GeneID:3298
TrivialName: PA14_45960
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_45960
PAO1 Ortholog Locus:PA1430
Sequence Length:720
Protein Length:239
Start: 4086058
Stop: 4085339
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04819.1|AE004572_7 (AE004572) transcriptional regulator LasR [Pseudomonas aeruginosa PAO1]
Identities = 239/239 (100%), Positives = 239/239 (100%)
Sequence:
ATGGCCTTGGTTGACGGTTTTCTTGAGCTGGAACGCTCAAGTGGAAAATTGGAGTGGAGCGCCATCCTGCAG
AAGATGGCGAGCGACCTTGGATTCTCGAAGATCCTCTTCGGCCTGTTGCCTAAGGACAGCCAGGACTACGAG
AACGCCTTCATCGTCGGCAACTACCCGGCCGCCTGGCGCGAGCATTACGACCGGGCTGGCTACGCGCGGGTC
GACCCAACGGTCAGTCACTGTACCCAGAGCGTACTGCCGATTTTCTGGGAACCGTCCATCTACCAGACGCGA
AAGCAGCACGAGTTCTTCGAGGAAGCCTCGGCGGCCGGCCTGGTGTATGGGCTGACCATGCCGCTGCATGGT
GCGCGCGGCGAACTCGGCGCGCTGAGCCTCAGCGTGGAAGCGGAAAACCGGGCCGAGGCCAACCGTTTCATG
GAGTCGGTCCTGCCGACCCTGTGGATGCTCAAGGACTACGCACTGCAGAGCGGTGCCGGACTGGCCTTCGAA
CATCCGGTCAGCAAACCGGTGGTTCTGACCAGCCGGGAGAAGGAAGTGTTGCAGTGGTGCGCCATCGGCAAG
ACCAGTTGGGAGATATCGGTTATCTGCAACTGCTCGGAAGCCAATGTGAACTTCCATATGGGAAATATTCGG
CGGAAGTTCGGTGTGACCTCCCGCCGCGTAGCGGCCATTATGGCCGTTAATTTGGGTCTTATTACTCTCTGA
Translation:
MALVDGFLELERSSGKLEWSAILQKMASDLGFSKILFGLLPKDSQDYENAFIVGNYPAAWREHYDRAGYARV
DPTVSHCTQSVLPIFWEPSIYQTRKQHEFFEEASAAGLVYGLTMPLHGARGELGALSLSVEAENRAEANRFM
ESVLPTLWMLKDYALQSGAGLAFEHPVSKPVVLTSREKEVLQWCAIGKTSWEISVICNCSEANVNFHMGNIR
RKFGVTSRRVAAIMAVNLGLITL*
AnnotationID:3306GeneID:3298
AnnotatorUID: diggins
Modification Date/Time: 2005-05-28 18:06:11
Gene Name:lasR
Confidence Code:1
GeneProduct:transcriptional regulator LasR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:transcriptional activator LasR
Functional Category Confidence Code:5
COGs:pfam03472,pfam00196,smart00421,COG2771
Secondary Functional Category(ies):adaptation, protection
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:
pfam03472, Autoind_bind, Autoinducer binding domain.
CD-Length = 150 residues,  96.0% aligned
Score =  134 bits (338), Expect = 1e-32
Identities = 46/146 (31%), Positives = 64/146 (43%), Gaps = 4/146 (2%)

pfam00196, GerE, Bacterial regulatory proteins, luxR family.
CD-Length = 58 residues,  96.6% aligned
Score = 78.3 bits (193), Expect = 8e-16
Identities = 24/56 (42%), Positives = 31/56 (55%)

smart00421, HTH_LUXR, helix_turn_helix, Lux Regulon
CD-Length = 58 residues, 100.0% aligned
Score = 69.0 bits (169), Expect = 5e-13
Identities = 25/58 (43%), Positives = 31/58 (53%)

COG2771, CsgD, DNA-binding HTH domain-containing proteins [Transcription]
CD-Length = 65 residues, 100.0% aligned
Score = 65.1 bits (158), Expect = 8e-12







   
Genomic Context:






   
Comment:


















    ReferenceID:6599




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23741




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37361




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3298_cdd.html


    		




 
URL:

















    ReferenceID:37992




  
Author/Investigator(s):
        Gambello MJ, Iglewski BH.





  
Title:
        Cloning and characterization of the Pseudomonas aeruginosa lasR gene, a transcriptional activator of elastase expression.




  
PubMed:
        1902216


MedLine:
        




    
Source:
J Bacteriol. 1991 May;173(9):3000-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1902216

















    ReferenceID:37993




  
Author/Investigator(s):
        Fukushima J, Ishiwata T, Kurata M, You Z, Okuda K.





  
Title:
        Intracellular receptor-type transcription factor, LasR, contains a highly conserved amphipathic region which precedes the putative helix-turn-helix DNA binding motif.




  
PubMed:
        7937080


MedLine:
        




    
Source:
Nucleic Acids Res. 1994 Sep 11;22(18):3706-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7937080









           
Homologs By Global Alignment 

           

       



     
Gene ID:3298
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5294
                           PA1430_tr
                           translation of PA1430
                           239
                           99.99
                           99.99
                           0
                           1243.0
     

     
     
148319
                           gb|AAG04819.1|AE004572_7
                           (AE004572) transcriptional regulator LasR [Pseudomonas aeruginosa PAO1]
                           239
                           99.99
                           99.99
                           0
                           1243.0
     

     
     
148320
                           gb|AAA25874.1|
                           (M59425) transcriptional activator LasR [Pseudomonas aeruginosa]
                           239
                           99.99
                           99.99
                           0
                           1243.0
     

     
     
148321
                           dbj|BAA06489.1|
                           (D30812) LasR [Pseudomonas aeruginosa]
                           239
                           99.58
                           99.99
                           0
                           1239.0
     

     
     
148322
                           dbj|BAA06490.1|
                           (D30813) LasR [Pseudomonas aeruginosa]
                           239
                           99.16
                           99.58
                           0
                           1231.0
     

     






      

          
GC ORFID: 46300How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1430Glimmer Score: 

          
Start: 867851Stop: 868570

          
Length: 720


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1430 translation of PA1430Homolog Bit Score 483.0

          
Other Homologs:  t_PA1430 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCTTGGTTGACGGTTTTCTTGAGCTGGAACGCTCAAGTGGAAAATTGGAGTGGAGCGCCATCCTGCAG 
AAGATGGCGAGCGACCTTGGATTCTCGAAGATCCTCTTCGGCCTGTTGCCTAAGGACAGCCAGGACTACGAG 
AACGCCTTCATCGTCGGCAACTACCCGGCCGCCTGGCGCGAGCATTACGACCGGGCTGGCTACGCGCGGGTC 
GACCCAACGGTCAGTCACTGTACCCAGAGCGTACTGCCGATTTTCTGGGAACCGTCCATCTACCAGACGCGA 
AAGCAGCACGAGTTCTTCGAGGAAGCCTCGGCGGCCGGCCTGGTGTATGGGCTGACCATGCCGCTGCATGGT 
GCGCGCGGCGAACTCGGCGCGCTGAGCCTCAGCGTGGAAGCGGAAAACCGGGCCGAGGCCAACCGTTTCATG 
GAGTCGGTCCTGCCGACCCTGTGGATGCTCAAGGACTACGCACTGCAGAGCGGTGCCGGACTGGCCTTCGAA 
CATCCGGTCAGCAAACCGGTGGTTCTGACCAGCCGGGAGAAGGAAGTGTTGCAGTGGTGCGCCATCGGCAAG 
ACCAGTTGGGAGATATCGGTTATCTGCAACTGCTCGGAAGCCAATGTGAACTTCCATATGGGAAATATTCGG 
CGGAAGTTCGGTGTGACCTCCCGCCGCGTAGCGGCCATTATGGCCGTTAATTTGGGTCTTATTACTCTCTGA