ViewGene
Locus Name:
GeneID:
Location:

GeneID:3686
TrivialName: PA14_13730
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_13730
PAO1 Ortholog Locus:PA3879
Sequence Length:660
Protein Length:219
Start: 1178777
Stop: 1178118
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07266.1|AE004805_4 (AE004805) two-component response regulator NarL [Pseudomonas aeruginosa PAO1]
Identities = 219/219 (100%), Positives = 219/219 (100%)
Sequence:
ATGACGGACATGCCAGCCACCGCCGACGAACCGGTTCGCCTGCTGCTGGTGGACGACCATCCGATGATGCGC
AAGGGCGTCGCCCAGTTGCTCGAACTGGAAGACGACCTCAGCGTGGTCGGCGAGGCCGGCAGCGGCGAGGAG
GCCCTGCGCCTGGCCGCCGAGCTGGACCCGGACATGATCCTGCTGGACCTGAACATGAAGGGCATGAACGGC
CTGGACACCCTGCGCGCGTTGCGCGAGGCCGGAGTCGACGCGCGCATCGTGGTGTTCACCGTGTCCGACGAC
AAGGGCGACGTGGTCAACGTCCTGCGCGCCGGCGCCGACGGCTACCTGCTCAAGGACATGGAGCCGGAGCGC
CTGCTCGAGCACATCCGCCAGGCCGCCACCGGACAGATGACCCTGAGCCCGCAGTTGACCCAGATCCTCGCC
CAGGCCCTGCGGGGCGACGACCGCTCGAAGAGCCTCGACGAGCTGACCGAGCGCGAACGGCAGATCCTCCGC
CAGATCGCCCACGGCTACAGCAACAAGATGATCGCGCGAAAGCTGGACATCACCGAAGGCACGGTGAAGGTC
CATGTCAAGCGGGTGCTGCACAAGCTCGGCATGCGTTCGCGGGTCGAGGCCGCGGTGTGGGCGGTGGAGAAC
GACCTGGTGTAA
Translation:
MTDMPATADEPVRLLLVDDHPMMRKGVAQLLELEDDLSVVGEAGSGEEALRLAAELDPDMILLDLNMKGMNG
LDTLRALREAGVDARIVVFTVSDDKGDVVNVLRAGADGYLLKDMEPERLLEHIRQAATGQMTLSPQLTQILA
QALRGDDRSKSLDELTERERQILRQIAHGYSNKMIARKLDITEGTVKVHVKRVLHKLGMRSRVEAAVWAVEN
DLV*
AnnotationID:3694GeneID:3686
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 12:12:48
Gene Name:narL
Confidence Code:2
GeneProduct:putative nitrate/nitrite response regulator; NarL
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2197,cd00156,pfam00072,smart00448
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAG34369.1|AF197465_1 (AF197465) nitrate/nitrite response regulator; NarL [Pseudomonas
           fluorescens]
          Length = 215

 Score =  249 bits (636), Expect = 8e-66
 Identities = 126/203 (62%), Positives = 158/203 (77%), Gaps = 1/203 (0%)

>gb|AAA24199.1| (M24910) nitrogenase reductase [Escherichia coli]
          Length = 216

 Score =  239 bits (611), Expect = 7e-63
 Identities = 122/205 (59%), Positives = 155/205 (75%), Gaps = 2/205 (0%)

>gb|AAL20682.1| (AE008778) response regulator in two-component regulatory system
           with NarX (or NarQ) [Salmonella typhimurium LT2]
          Length = 216

 Score =  239 bits (609), Expect = 1e-62
 Identities = 124/205 (60%), Positives = 155/205 (75%), Gaps = 2/205 (0%)








 
Structural Features:
COG2197, CitB, Response regulator containing a CheY-like receiver domain 
and an HTH DNA-binding domain 
[Signal transduction mechanisms / Transcription]
CD-Length = 211 residues,  98.6% aligned
Score =  206 bits (526), Expect = 3e-54
Identities = 110/208 (52%), Positives = 143/208 (68%), Gaps = 1/208 (0%)

cd00156, REC, Signal receiver domain
CD-Length = 113 residues, 100.0% aligned
Score =  102 bits (256), Expect = 6e-23
Identities = 56/115 (48%), Positives = 70/115 (60%), Gaps = 2/115 (1%)

pfam00072, Response_reg, Response regulator receiver domain. 
CD-Length = 120 residues,  98.3% aligned
Score =  101 bits (254), Expect = 1e-22
Identities = 56/120 (46%), Positives = 74/120 (61%), Gaps = 2/120 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:7375




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24517




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31685




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3686_cdd.html


    		




 
URL:

















    ReferenceID:34341




  
Author/Investigator(s):
        Stewart V, Parales J Jr, Merkel SM.





  
Title:
        Structure of genes narL and narX of the nar (nitrate reductase) locus in Escherichia coli K-12.




  
PubMed:
        2649492


MedLine:
        




    
Source:
J Bacteriol. 1989 Apr;171(4):2229-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2649492

















    ReferenceID:34342




  
Author/Investigator(s):
        Nohno T, Noji S, Taniguchi S, Saito T.





  
Title:
        The narX and narL genes encoding the nitrate-sensing regulators of Escherichia coli are homologous to a family of prokaryotic two-component regulatory genes.




  
PubMed:
        2657652


MedLine:
        




    
Source:
Nucleic Acids Res. 1989 Apr 25;17(8):2947-57.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2657652

















    ReferenceID:34343




  
Author/Investigator(s):
        Gunsalus RP, Kalman LV, Stewart RR.





  
Title:
        Nucleotide sequence of the narL gene that is involved in global regulation of nitrate controlled respiratory genes of Escherichia coli.




  
PubMed:
        2648330


MedLine:
        




    
Source:
Nucleic Acids Res. 1989 Mar 11;17(5):1965-75.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2648330

















    ReferenceID:34344




  
Author/Investigator(s):
        Philippot L, Mirleau P, Mazurier S, Siblot S, Hartmann A, Lemanceau P, Germon JC.





  
Title:
        Characterization and transcriptional analysis of Pseudomonas fluorescens denitrifying clusters containing the nar, nir, nor and nos genes.




  
PubMed:
        11342223


MedLine:
        




    
Source:
Biochim Biophys Acta. 2001 Feb 16;1517(3):436-40.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11342223

















    ReferenceID:34345




  
Author/Investigator(s):
        Hartig E, Schiek U, Vollack KU, Zumft WG.





  
Title:
        Nitrate and nitrite control of respiratory nitrate reduction in denitrifying Pseudomonas stutzeri by a two-component regulatory system homologous to NarXL of Escherichia coli.




  
PubMed:
        10368138


MedLine:
        




    
Source:
J Bacteriol. 1999 Jun;181(12):3658-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10368138









           
Homologs By Global Alignment 

           

       



     
Gene ID:3686
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5889
                           PA3879_tr
                           translation of PA3879
                           219
                           99.99
                           99.99
                           0
                           1085.0
     

     
     
164948
                           gb|AAG07266.1|AE004805_4
                           (AE004805) two-component response regulator NarL [Pseudomonas aeruginosa PAO1]
                           219
                           99.99
                           99.99
                           0
                           1085.0
     

     
     
164949
                           emb|CAA75536.1|
                           (Y15252) nitrate/nitrite regulatory protein [Pseudomonas aeruginosa]
                           219
                           98.63
                           98.63
                           3
                           1069.0
     

     
     
164950
                           emb|CAB44989.1|
                           (AJ131854) NarL protein [Pseudomonas stutzeri]
                           223
                           60.08
                           78.92
                           9
                           684.0
     

     
     
164951
                           dbj|BAB84309.1|
                           (AB076402) putative nitrate/nitrite response regulator [Halomonas halodenitrificans]
                           223
                           58.74
                           76.68
                           6
                           674.0
     

     






      

          
GC ORFID: 46688How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3879Glimmer Score: 

          
Start: 3775161Stop: 3775820

          
Length: 660


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA3879 translation of PA3879Homolog Bit Score 422.0

          
Other Homologs:  t_PA3879 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACGGACATGCCAGCCACCGCCGACGAACCGGTTCGCCTGCTGCTGGTGGACGACCATCCGATGATGCGC 
AAGGGCGTCGCCCAGTTGCTCGAACTGGAAGACGACCTCAGCGTGGTCGGCGAGGCCGGCAGCGGCGAGGAG 
GCCCTGCGCCTGGCCGCCGAGCTGGACCCGGACATGATCCTGCTGGACCTGAACATGAAGGGCATGAACGGC 
CTGGACACCCTGCGCGCGTTGCGCGAGGCCGGAGTCGACGCGCGCATCGTGGTGTTCACCGTGTCCGACGAC 
AAGGGCGACGTGGTCAACGTCCTGCGCGCCGGCGCCGACGGCTACCTGCTCAAGGACATGGAGCCGGAGCGC 
CTGCTCGAGCACATCCGCCAGGCCGCCACCGGACAGATGACCCTGAGCCCGCAGTTGACCCAGATCCTCGCC 
CAGGCCCTGCGGGGCGACGACCGCTCGAAGAGCCTCGACGAGCTGACCGAGCGCGAACGGCAGATCCTCCGC 
CAGATCGCCCACGGCTACAGCAACAAGATGATCGCGCGAAAGCTGGACATCACCGAAGGCACGGTGAAGGTC 
CATGTCAAGCGGGTGCTGCACAAGCTCGGCATGCGTTCGCGGGTCGAGGCCGCGGTGTGGGCGGTGGAGAAC 
GACCTGGTGTAA