ViewGene
Locus Name:
GeneID:
Location:

GeneID:1865
TrivialName: PA14_34150
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_34150
PAO1 Ortholog Locus:PA2359
Sequence Length:1086
Protein Length:361
Start: 3037579
Stop: 3038664
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05747.1|AE004662_2 (AE004662) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 358/361 (99%), Positives = 361/361 (100%)
Sequence:
ATGTCCGTCATCACCCATCCCCACGCCCGCGAGCTGACCAAATCGGTGCGCGCCACCGTGCTGGTGTTCAAC
GACCCCCGTTCCCGCGAGCTGCTGGAGCGCATCGAGCGCCTGGCGCCCAGCGAGGCCAACGCGCTGGTCATC
GGCGAGACCGGCACCGGCAAGGAGCTGGTGGCGCGCCATATCCATGCCCTCAGCGGACGCAGCGGCGGCCCG
TTCGTCGCGGTCAACTGCGGTGCTTTCGCCGAGAGCCTGGTGGAGAGCGAGCTGTTCGGCCACGAGAAGGGC
GCCTTTACCGGTGCGTTGCAGAGCAAGGCCGGCTGGTTCGAGGCGGCCAACGGCGGCACCCTGTTCCTCGAC
GAGATCGGCGACCTGCCGCCGAGCATCCAGGTCAAGCTGCTGCGCGTGCTGCAGGAGCGCGAGGTGGTGCGG
CTCGGTTCGCGCCGGCCGATCCCCATCGACGTGCGGCTGGTGGCGGCGACCAACGTCGACCTGGCCGAGGCG
GTGGTCGCTGGGCACTTCCGCGAGGACCTGTTCTACCGCCTGCACGTGGCGACCATCCAACTGCCGCCGTTG
CGCGAGCGCCGCGGCGATATCCTGCCGCTGGCCGAGTACTTCATCGTCGAGCACTGCCGGCGCCTCGGCTAC
ACCAGCGCGAGCCTGAGCCCGGAAGCCGAGCGCAAGCTGCTCGGGCACTCCTGGGCGGGCAATATCCGCGAG
CTGGAGAACGCCATCCACCACGCGCTGCTGGTCTGCCGCAACCGCCTGATCCAGCCGGCCGACCTGCACCTC
ATCGACATGCGTGCGCGCCAGGAGCCGAGCGGCTTGCGCCGTGCTCCCGAGAGCGCCGCCGGCTCGGCGCTG
GAAGCGGCGCTGCAGGCGCTGTTCGAGGAAAACCGCGAGGATCTCTACGAGCACATCGAGGAAACCGTGTTC
CGCGCCGCCTATCGCTTCTGCCACGGCAACCAGTTGCAGACCGGACGCCTGCTGGGGATCAGCCGCAACATC
GTGCGCGCCCGCCTGGAGAAGATCGGCGAGCTGGAAACCTCGCCACGACACAACGTGGTCTCGCTGGTGGGC
AAGTGA
Translation:
MSVITHPHARELTKSVRATVLVFNDPRSRELLERIERLAPSEANALVIGETGTGKELVARHIHALSGRSGGP
FVAVNCGAFAESLVESELFGHEKGAFTGALQSKAGWFEAANGGTLFLDEIGDLPPSIQVKLLRVLQEREVVR
LGSRRPIPIDVRLVAATNVDLAEAVVAGHFREDLFYRLHVATIQLPPLRERRGDILPLAEYFIVEHCRRLGY
TSASLSPEAERKLLGHSWAGNIRELENAIHHALLVCRNRLIQPADLHLIDMRARQEPSGLRRAPESAAGSAL
EAALQALFEENREDLYEHIEETVFRAAYRFCHGNQLQTGRLLGISRNIVRARLEKIGELETSPRHNVVSLVG
K*
AnnotationID:1874GeneID:1865
AnnotatorUID: diggins
Modification Date/Time: 2005-03-04 16:04:36
Gene Name:
Confidence Code:3
GeneProduct:putative sigma54-dependent transcriptional regulator
Cell Localization:()
Synonyms:sfnR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00158
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN68379.1|AE016470_8 (AE016784) sigma-54 dependent transcriptional regulator
           [Pseudomonas putida KT2440]
          Length = 367

 Score =  444 bits (1142), Expect = e-124
 Identities = 230/355 (64%), Positives = 273/355 (76%), Gaps = 7/355 (1%)

>gb|AAO56942.1| (AE016868) sigma-54 dependent transcriptional regulator, putative
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 368

 Score =  422 bits (1084), Expect = e-117
 Identities = 210/350 (60%), Positives = 265/350 (75%), Gaps = 2/350 (0%)

>gb|AAM35733.1| (AE011716) transcriptional regulator [Xanthomonas axonopodis pv.
           citri str. 306]
          Length = 375

 Score =  392 bits (1006), Expect = e-108
 Identities = 206/353 (58%), Positives = 262/353 (74%), Gaps = 6/353 (1%)








 
Structural Features:
pfam00158, Sigma54_activat, Sigma-54 interaction domain.
CD-Length = 222 residues, 100.0% aligned
Score =  303 bits (777), Expect = 2e-83
Identities = 130/222 (58%), Positives = 163/222 (73%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3733




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20880




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32906




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1865_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1865
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3268
                           PA2359_tr
                           translation of PA2359
                           361
                           99.16
                           99.99
                           0
                           1821.0
     

     
     
101183
                           gb|AAG05747.1|AE004662_2
                           (AE004662) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           361
                           99.16
                           99.99
                           0
                           1821.0
     

     
     
101185
                           gb|AAN68379.1|AE016470_8
                           (AE016784) sigma-54 dependent transcriptional regulator [Pseudomonas putida KT2440]
                           374
                           62.29
                           74.33
                           20
                           1141.0
     

     
     
101184
                           gb|AAG05742.1|AE004661_9
                           (AE004661) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           382
                           60.73
                           71.98
                           27
                           1150.0
     

     
     
3269
                           PA2354_tr
                           translation of PA2354
                           382
                           60.73
                           71.98
                           27
                           1150.0
     

     






      

          
GC ORFID: 44867How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2359Glimmer Score: 

          
Start: 1916337Stop: 1915252

          
Length: 1086


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2359 translation of PA2359Homolog Bit Score 706.0

          
Other Homologs:  t_PA2354 (ORF: BLASTX 450.0), psyr_15may02_Scaffold1_revised_gene1290 (ORF: BLASTX 429.0), t_PA2359 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCGTCATCACCCATCCCCACGCCCGCGAGCTGACCAAATCGGTGCGCGCCACCGTGCTGGTGTTCAAC 
GACCCCCGTTCCCGCGAGCTGCTGGAGCGCATCGAGCGCCTGGCGCCCAGCGAGGCCAACGCGCTGGTCATC 
GGCGAGACCGGCACCGGCAAGGAGCTGGTGGCGCGCCATATCCATGCCCTCAGCGGACGCAGCGGCGGCCCG 
TTCGTCGCGGTCAACTGCGGTGCTTTCGCCGAGAGCCTGGTGGAGAGCGAGCTGTTCGGCCACGAGAAGGGC 
GCCTTTACCGGTGCGTTGCAGAGCAAGGCCGGCTGGTTCGAGGCGGCCAACGGCGGCACCCTGTTCCTCGAC 
GAGATCGGCGACCTGCCGCCGAGCATCCAGGTCAAGCTGCTGCGCGTGCTGCAGGAGCGCGAGGTGGTGCGG 
CTCGGTTCGCGCCGGCCGATCCCCATCGACGTGCGGCTGGTGGCGGCGACCAACGTCGACCTGGCCGAGGCG 
GTGGTCGCTGGGCACTTCCGCGAGGACCTGTTCTACCGCCTGCACGTGGCGACCATCCAACTGCCGCCGTTG 
CGCGAGCGCCGCGGCGATATCCTGCCGCTGGCCGAGTACTTCATCGTCGAGCACTGCCGGCGCCTCGGCTAC 
ACCAGCGCGAGCCTGAGCCCGGAAGCCGAGCGCAAGCTGCTCGGGCACTCCTGGGCGGGCAATATCCGCGAG 
CTGGAGAACGCCATCCACCACGCGCTGCTGGTCTGCCGCAACCGCCTGATCCAGCCGGCCGACCTGCACCTC 
ATCGACATGCGTGCGCGCCAGGAGCCGAGCGGCTTGCGCCGTGCTCCCGAGAGCGCCGCCGGCTCGGCGCTG 
GAAGCGGCGCTGCAGGCGCTGTTCGAGGAAAACCGCGAGGATCTCTACGAGCACATCGAGGAAACCGTGTTC 
CGCGCCGCCTATCGCTTCTGCCACGGCAACCAGTTGCAGACCGGACGCCTGCTGGGGATCAGCCGCAACATC 
GTGCGCGCCCGCCTGGAGAAGATCGGCGAGCTGGAAACCTCGCCACGACACAACGTGGTCTCGCTGGTGGGC 
AAGTGA