ViewGene
Locus Name:
GeneID:
Location:

GeneID:3246
TrivialName: PA14_46660
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_46660
PAO1 Ortholog Locus:PA1363
Sequence Length:741
Protein Length:246
Start: 4159887
Stop: 4159147
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04752.1|AE004565_11 (AE004565) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 242/246 (98%), Positives = 243/246 (98%)
Sequence:
GTGCCCCCCGGCAAGGCCGGGGGGGGGAGTAGCGGGGCGAAAAGGGGATCCCTCTCCGCCCTGGCTCGGCAG
TTGCGCGGGCGGGCGAAAGCCACCTGCCCGCTACGCACGCCAACCCAGGCAATCCCTGACGATGACCGGTCT
TTCATCTGCGACTGTTTCTCATTTACACTCGTCCCCCATTCTTCGGAGCCAGGCTCCTTTCCTGGGTGCATC
GTGCCGTTCGATCCCGCCAAGCCGACGCTGTTGTCCACATTGGTTCGTCACTACGAGGAACTGGTCGACCAT
GTTCGCCGGCGCTTCGGCGACCGGGGCATGGCGCGCGAAGTGGTGCACGACGTGTGCGTGCAGTTGCTCGAA
CGCGACGAGAAGGAGGACGTGCACACGCCCCTGGCCCTGCTGCGGAAAATCTCCCACGACACCGCCGTGAGC
CGCTATCGTAGCGACCGTCGTCGAACCGCCTGGGTAGAAGCCGTCGCCGAGCTTCCGGAAGTCGCCTGCATG
GCGGCGACGCCCATGGGTCGCCATGAGGCCGAGCGCGAGTTCCAGGCACTGGTCGACGCCATCGCCACGCTT
CCTCCTCGCTGCCAGGCCGTTTTCGTCATGCACAAGATCCACGAAATTCCCCAGGCGCAAGTCGCCGACCGC
CTCGGCATCTCCGTCAAGACCGTGGAAAAGCACCTGCGCCTCGGACTGGCGGCCTGCCGGGAACGGCTCGGC
CGCGGCGAGGCACGGCCATGA
Translation:
MPPGKAGGGSSGAKRGSLSALARQLRGRAKATCPLRTPTQAIPDDDRSFICDCFSFTLVPHSSEPGSFPGCI
VPFDPAKPTLLSTLVRHYEELVDHVRRRFGDRGMAREVVHDVCVQLLERDEKEDVHTPLALLRKISHDTAVS
RYRSDRRRTAWVEAVAELPEVACMAATPMGRHEAEREFQALVDAIATLPPRCQAVFVMHKIHEIPQAQVADR
LGISVKTVEKHLRLGLAACRERLGRGEARP*
AnnotationID:3254GeneID:3246
AnnotatorUID: diggins
Modification Date/Time: 2005-02-23 20:08:15
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA1363
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:
>emb|CAD16625.1| (AL646072) PUTATIVE EXTRACYTOPLASMIC FUNCTION SIGMA FACTOR
           (IRON-REGULATED) TRANSCRIPTION REGULATOR PROTEIN
           [Ralstonia solanacearum]
          Length = 174

 Score =  162 bits (409), Expect = 2e-39
 Identities = 87/165 (52%), Positives = 110/165 (66%), Gaps = 1/165 (0%)








 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues,  96.2% aligned
Score =  107 bits (267), Expect = 2e-24
Identities = 50/175 (28%), Positives = 75/175 (42%), Gaps = 1/175 (0%)

pfam04545, Sigma70_r4, Sigma-70, region 4.
CD-Length = 50 residues, 100.0% aligned
Score = 50.7 bits (122), Expect = 2e-07
Identities = 15/50 (30%), Positives = 27/50 (54%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14779




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23637




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37409




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3246_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3246
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5222
                           PA1363_tr
                           translation of PA1363
                           246
                           98.37
                           98.78
                           0
                           1261.0
     

     
     
146231
                           gb|AAG04752.1|AE004565_11
                           (AE004565) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           246
                           97.96
                           98.78
                           0
                           1258.0
     

     
     
146232
                           emb|CAD16625.1|
                           (AL646072) PUTATIVE EXTRACYTOPLASMIC FUNCTION SIGMA FACTOR (IRON-REGULATED) TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum]
                           249
                           36.54
                           46.18
                           78
                           413.0
     

     
     
146233
                           emb|CAD17566.1|
                           (AL646078) PROBABLE EXTRACYTOPLASMIC FUNCTION SIGMA FACTOR TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum]
                           276
                           27.89
                           36.59
                           112
                           320.0
     

     






      

          
GC ORFID: 46248How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1363Glimmer Score: 

          
Start: 794022Stop: 794762

          
Length: 741


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1363 translation of PA1363Homolog Bit Score 490.0

          
Other Homologs:  t_PA1363 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGCCCCCCGGCAAGGCCGGGGGGGGGAGTAGCGGGGCGAAAAGGGGATCCCTCTCCGCCCTGGCTCGGCAG 
TTGCGCGGGCGGGCGAAAGCCACCTGCCCGCTACGCACGCCAACCCAGGCAATCCCTGACGATGACCGGTCT 
TTCATCTGCGACTGTTTCTCATTTACACTCGTCCCCCATTCTTCGGAGCCAGGCTCCTTTCCTGGGTGCATC 
GTGCCGTTCGATCCCGCCAAGCCGACGCTGTTGTCCACATTGGTTCGTCACTACGAGGAACTGGTCGACCAT 
GTTCGCCGGCGCTTCGGCGACCGGGGCATGGCGCGCGAAGTGGTGCACGACGTGTGCGTGCAGTTGCTCGAA 
CGCGACGAGAAGGAGGACGTGCACACGCCCCTGGCCCTGCTGCGGAAAATCTCCCACGACACCGCCGTGAGC 
CGCTATCGTAGCGACCGTCGTCGAACCGCCTGGGTAGAAGCCGTCGCCGAGCTTCCGGAAGTCGCCTGCATG 
GCGGCGACGCCCATGGGTCGCCATGAGGCCGAGCGCGAGTTCCAGGCACTGGTCGACGCCATCGCCACGCTT 
CCTCCTCGCTGCCAGGCCGTTTTCGTCATGCACAAGATCCACGAAATTCCCCAGGCGCAAGTCGCCGACCGC 
CTCGGCATCTCCGTCAAGACCGTGGAAAAGCACCTGCGCCTCGGACTGGCGGCCTGCCGGGAACGGCTCGGC 
CGCGGCGAGGCACGGCCATGA