ViewGene
Locus Name:
GeneID:
Location:

GeneID:3801
TrivialName: PA14_21550
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_21550
PAO1 Ortholog Locus:PA3285
Sequence Length:612
Protein Length:203
Start: 1868892
Stop: 1869503
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06673.1|AE004750_11 (AE004750) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 203/203 (100%), Positives = 203/203 (100%)
Sequence:
GTGGCGGCGCCTACCGACGCCGAGCTGCTGCCGCGCCTGCTGGCCGGCGAGCAGCGAGCCTTTCGCGAGCTG
GTTGGCGCCTACCAGGGCGCCATGCGGGCCGTGGCCTGGGCGATCATCGGCAGATCGCATACCGAGGAAGTG
GTGCAGGACGCCTGGCTTGCGGCGGTTCGCGGGCTGGACGGGTTCCAGGGGCGTTCGAGCCTGAAGACCTGG
CTGCTGACCATCACCGCCAATACCGCCAAGAGCCGCTTGCGCCAGGTTCGCCGGGAAGTTTTCCTCGACGAC
CTGCCGGGGCCCCATGGTACGGTGGATGACCAGCGCTTTGCCGCCGACGGTCACTGGAGCCAGCCGCCGCAC
GCCTGGCACGAGGATTCGCCGGAAGCCCTGCTCACCGAGGGCGAACTGCGCGATTGCCTGGACAAGACCCTC
AACGGTCTGTCCGAACTGCAGCGCAGCGTGCTGACCCTGCGCGAACGCCAGGGCTTGGAGCTGGAGGAAATC
CGTGATCTCCTGGATATCACGCTTTCCAATGTCCGGGTGCTGCTGCATCGCGCCCGCCTGAAGGTCTTCGCC
ACCCTGGAGCATTTCGAGGAGACCGGCCAATGCTGA
Translation:
MAAPTDAELLPRLLAGEQRAFRELVGAYQGAMRAVAWAIIGRSHTEEVVQDAWLAAVRGLDGFQGRSSLKTW
LLTITANTAKSRLRQVRREVFLDDLPGPHGTVDDQRFAADGHWSQPPHAWHEDSPEALLTEGELRDCLDKTL
NGLSELQRSVLTLRERQGLELEEIRDLLDITLSNVRVLLHRARLKVFATLEHFEETGQC*
AnnotationID:3808GeneID:3801
AnnotatorUID: diggins
Modification Date/Time: 2005-04-15 06:06:24
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA3285
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1595,pfam04542
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAP17956.1| (AE016987) sigma-E factor of RNA polymerase [Shigella flexneri 2a
           str. 2457T]
          Length = 191

 Score = 92.0 bits (227), Expect = 2e-18
 Identities = 61/183 (33%), Positives = 92/183 (50%), Gaps = 10/183 (5%)

>gb|AAN81546.1|AE016764_228 (AE016764) RNA polymerase sigma-E factor [Escherichia coli CFT073]
          Length = 202

 Score = 92.0 bits (227), Expect = 2e-18
 Identities = 61/183 (33%), Positives = 92/183 (50%), Gaps = 10/183 (5%)






 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues, 100.0% aligned
Score =  104 bits (259), Expect = 1e-23
Identities = 64/198 (32%), Positives = 90/198 (45%), Gaps = 17/198 (8%)

pfam04542, Sigma70_r2, Sigma-70 region 2
CD-Length = 71 residues, 100.0% aligned
Score = 43.7 bits (103), Expect = 2e-05
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 3/71 (4%)







   
Genomic Context:






   
Comment:


















    ReferenceID:14929




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24747




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32263




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3801_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3801
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6022
                           PA3285_tr
                           translation of PA3285
                           203
                           99.99
                           99.99
                           0
                           1047.0
     

     
     
167860
                           gb|AAG06673.1|AE004750_11
                           (AE004750) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           203
                           99.50
                           99.99
                           0
                           1044.0
     

     
     
167861
                           emb|CAB65706.1|
                           (Y17691) SigY protein [Xanthomonas campestris]
                           247
                           34.00
                           46.55
                           45
                           344.0
     

     






      

          
GC ORFID: 46803How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3285Glimmer Score: 

          
Start: 3085039Stop: 3084428

          
Length: 612


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3285 translation of PA3285Homolog Bit Score 407.0

          
Other Homologs:  t_PA3285 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGCGGCGCCTACCGACGCCGAGCTGCTGCCGCGCCTGCTGGCCGGCGAGCAGCGAGCCTTTCGCGAGCTG 
GTTGGCGCCTACCAGGGCGCCATGCGGGCCGTGGCCTGGGCGATCATCGGCAGATCGCATACCGAGGAAGTG 
GTGCAGGACGCCTGGCTTGCGGCGGTTCGCGGGCTGGACGGGTTCCAGGGGCGTTCGAGCCTGAAGACCTGG 
CTGCTGACCATCACCGCCAATACCGCCAAGAGCCGCTTGCGCCAGGTTCGCCGGGAAGTTTTCCTCGACGAC 
CTGCCGGGGCCCCATGGTACGGTGGATGACCAGCGCTTTGCCGCCGACGGTCACTGGAGCCAGCCGCCGCAC 
GCCTGGCACGAGGATTCGCCGGAAGCCCTGCTCACCGAGGGCGAACTGCGCGATTGCCTGGACAAGACCCTC 
AACGGTCTGTCCGAACTGCAGCGCAGCGTGCTGACCCTGCGCGAACGCCAGGGCTTGGAGCTGGAGGAAATC 
CGTGATCTCCTGGATATCACGCTTTCCAATGTCCGGGTGCTGCTGCATCGCGCCCGCCTGAAGGTCTTCGCC 
ACCCTGGAGCATTTCGAGGAGACCGGCCAATGCTGA