ViewGene
Locus Name:
GeneID:
Location:

GeneID:4097
TrivialName: PA14_01840
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_01840
PAO1 Ortholog Locus:PA0149
Sequence Length:546
Protein Length:181
Start: 168212
Stop: 168757
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03539.1|AE004453_2 (AE004453) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 181/181 (100%), Positives = 181/181 (100%)
Sequence:
TTGCCGGCAGACGGCGAGGCGGCGCGCCGCGCGGATCTGCTCAAGGCCTTCCTGGCCCAGCGCCAGCGCATG
GAAAGCCTGGTCAGCCGCTGGGTCGGCTGCCGGGCGACCGCCGCCGACCTGGTCCAGGAACTGTTCCTGCGC
TTCTGGCGGCGCCCGGCCGCCCCGGTGGAGGAGCTTGGCAGCTACCTCCTGCGCAGCGCGCGCAACCTGGCC
ATCGACCACTTGCGTGGCGAAGGATCGCGGCAGCGGCAACTGGACGACTGGCTGCCGGAGCAGCGCCAGGGC
GAGCCGGTCGGTCCCGAGCAGGCGCTCGAGGCCGGCGACCAGTGGCGCCGGGTCGAGGCCGCCTTGCGCGGC
CTGCCCGAGCGGACCCGGCGGATTTTCCTGCTCAATCGCATCCACGGCCGCACCTACGCGGAGATCGCCCAG
GCCATGCAGCTTTCCCAAAGCGCCGTGGAAAAACATATGATGCGCGCCCTCGACGCCTGCAAGGCGAGCCTG
GCCGGCCCGGCCGGCGAGCAGGCAAGGAGCGCCCAGCCATGA
Translation:
MPADGEAARRADLLKAFLAQRQRMESLVSRWVGCRATAADLVQELFLRFWRRPAAPVEELGSYLLRSARNLA
IDHLRGEGSRQRQLDDWLPEQRQGEPVGPEQALEAGDQWRRVEAALRGLPERTRRIFLLNRIHGRTYAEIAQ
AMQLSQSAVEKHMMRALDACKASLAGPAGEQARSAQP*
AnnotationID:4104GeneID:4097
AnnotatorUID: diggins
Modification Date/Time: 2005-03-23 06:06:51
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA0149
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:putative DNA-directed RNA polymerase specialized sigma subunit
Functional Category Confidence Code:5
COGs:COG1595,pfam04545
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70181.1|AE016657_6 (AE016791) RNA polymerase sigma-70 factor, ECF subfamily
           [Pseudomonas putida KT2440]
          Length = 191

 Score =  209 bits (533), Expect = 5e-54
 Identities = 112/176 (63%), Positives = 128/176 (72%)








 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription] 
CD-Length = 182 residues,  95.1% aligned
Score = 97.1 bits (241), Expect = 1e-21
Identities = 56/173 (32%), Positives = 81/173 (46%), Gaps = 3/173 (1%)

pfam04545, Sigma70_r4, Sigma-70, region 4.
CD-Length = 50 residues, 100.0% aligned
Score = 46.1 bits (110), Expect = 3e-06
Identities = 18/50 (36%), Positives = 26/50 (52%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15012




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25339




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33512




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4097_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4097
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6340
                           PA0149_tr
                           translation of PA0149
                           181
                           99.99
                           99.99
                           0
                           923.0
     

     
     
174398
                           gb|AAG03539.1|AE004453_2
                           (AE004453) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           181
                           99.44
                           99.99
                           0
                           921.0
     

     
     
174399
                           gb|AAN70181.1|AE016657_6
                           (AE016791) RNA polymerase sigma-70 factor, ECF subfamily [Pseudomonas putida KT2440]
                           191
                           58.63
                           67.01
                           10
                           528.0
     

     






      

          
GC ORFID: 47099How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0149Glimmer Score: 

          
Start: 5969551Stop: 5970096

          
Length: 546


          
Start Codon: TTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0149 translation of PA0149Homolog Bit Score 360.0

          
Other Homologs:  t_PA0149 (ORF: GLIMMER)

          
GC ORF Sequence

           
TTGCCGGCAGACGGCGAGGCGGCGCGCCGCGCGGATCTGCTCAAGGCCTTCCTGGCCCAGCGCCAGCGCATG 
GAAAGCCTGGTCAGCCGCTGGGTCGGCTGCCGGGCGACCGCCGCCGACCTGGTCCAGGAACTGTTCCTGCGC 
TTCTGGCGGCGCCCGGCCGCCCCGGTGGAGGAGCTTGGCAGCTACCTCCTGCGCAGCGCGCGCAACCTGGCC 
ATCGACCACTTGCGTGGCGAAGGATCGCGGCAGCGGCAACTGGACGACTGGCTGCCGGAGCAGCGCCAGGGC 
GAGCCGGTCGGTCCCGAGCAGGCGCTCGAGGCCGGCGACCAGTGGCGCCGGGTCGAGGCCGCCTTGCGCGGC 
CTGCCCGAGCGGACCCGGCGGATTTTCCTGCTCAATCGCATCCACGGCCGCACCTACGCGGAGATCGCCCAG 
GCCATGCAGCTTTCCCAAAGCGCCGTGGAAAAACATATGATGCGCGCCCTCGACGCCTGCAAGGCGAGCCTG 
GCCGGCCCGGCCGGCGAGCAGGCAAGGAGCGCCCAGCCATGA