ViewGene
Locus Name:
GeneID:
Location:

GeneID:2765
TrivialName: PA14_04930
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_04930
PAO1 Ortholog Locus:PA0376
Sequence Length:855
Protein Length:284
Start: 435419
Stop: 436273
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03765.1|AE004475_7 (AE004475) sigma factor RpoH [Pseudomonas aeruginosa PAO1]
Identities = 284/284 (100%), Positives = 284/284 (100%)
Sequence:
ATGACCACTTCTTTGCAACCTGTACATGCCTTGGTTCCAGGCGCAAACCTGGAAGCCTATGTGCACTCGGTG
AACAGCATTCCGCTGTTGTCGCCGGAGCAGGAGCGTGAACTGGCCGAACGCCTCTTCTATCAGCAAGACCTG
GAAGCGGCGCGGCAGATGGTGTTGGCGCACCTGCGCTTCGTTGTTCATATCGCCAAGAGTTATTCGGGGTAC
GGCCTGGCCCAGGCCGACCTGATCCAGGAAGGCAACGTCGGCCTGATGAAGGCCGTGAAGCGTTTCAACCCG
GAAATGGGCGTTCGCCTGGTGTCCTTCGCCGTGCACTGGATCAAGGCGGAGATCCACGAGTTCATCCTGCGC
AACTGGCGGATCGTCAAGGTCGCCACCACCAAGGCGCAGCGCAAGCTGTTCTTCAACCTGCGCAGCCAGAAG
AAGCGCCTGGCCTGGTTGAACAACGAGGAAGTCCATCGCGTCGCCGAGAGCCTGGGGGTCGAGCCCCGCGAA
GTGCGCGAGATGGAAAGCCGCCTGACCGGCCAGGACATGGCGTTCGACCCGGCCGCCGACGCGGACGACGAG
AGCGCCTACCAGTCGCCGGCGCATTACCTCGAAGACCACCGCTACGACCCGGCGCGCCAGTTGGAAGACGCC
GACTGGAGCGACAGCTCCAGCGCCAACCTGCACGAGGCGCTGGAAGGCCTCGACGAGCGCAGCCGCGACATT
CTCCAGCAGCGCTGGCTGTCCGAGGAGAAGGCCACGCTGCACGACCTGGCGGAAAAGTACAACGTCTCCGCC
GAGCGTATCCGGCAGCTGGAAAAGAACGCCATGAGCAAGCTGAAAGGGCGGATTCTCGCCTGA
Translation:
MTTSLQPVHALVPGANLEAYVHSVNSIPLLSPEQERELAERLFYQQDLEAARQMVLAHLRFVVHIAKSYSGY
GLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQK
KRLAWLNNEEVHRVAESLGVEPREVREMESRLTGQDMAFDPAADADDESAYQSPAHYLEDHRYDPARQLEDA
DWSDSSSANLHEALEGLDERSRDILQQRWLSEEKATLHDLAEKYNVSAERIRQLEKNAMSKLKGRILA*
AnnotationID:2773GeneID:2765
AnnotatorUID: diggins
Modification Date/Time: 2005-03-25 06:06:37
Gene Name:rpoH
Confidence Code:1
GeneProduct:RNA polymerase sigma-32 factor
Cell Localization:()
Synonyms:htpR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:heat shock regulatory protein
Functional Category Confidence Code:5
COGs:COG0568
Secondary Functional Category(ies):chaperones and heat shock protein
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53974.1| (AE016857) RNA polymerase sigma-32 factor [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 284

 Score =  513 bits (1320), Expect = e-145
 Identities = 254/284 (89%), Positives = 276/284 (97%)

>gb|AAF80334.1|AF157048_1 (AF157048) heat shock sigma factor RpoH [Pseudomonas putida]
          Length = 284

 Score =  511 bits (1315), Expect = e-144
 Identities = 251/284 (88%), Positives = 276/284 (97%)

>gb|AAL22428.1| (AE008864) sigma H factor of RNA polymerase; sigma 32 [Salmonella
           typhimurium LT2]
          Length = 284

 Score =  355 bits (910), Expect = 2e-97
 Identities = 175/285 (61%), Positives = 226/285 (79%), Gaps = 2/285 (0%)








 
Structural Features:
COG0568, RpoD, DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) 
[Transcription]
CD-Length = 342 residues,  81.6% aligned
Score =  248 bits (634), Expect = 6e-67
Identities = 99/288 (34%), Positives = 152/288 (52%), Gaps = 15/288 (5%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5533




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22677




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33721




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2765_cdd.html


    		




 
URL:

















    ReferenceID:35393




  
Author/Investigator(s):
        Benvenisti L, Koby S, Rutman A, Giladi H, Yura T, Oppenheim AB.





  
Title:
        Cloning and primary sequence of the rpoH gene from Pseudomonas aeruginosa.




  
PubMed:
        7698670


MedLine:
        




    
Source:
Gene. 1995 Mar 21;155(1):73-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7698670

















    ReferenceID:35394




  
Author/Investigator(s):
        Farinha MA, Mockett R, Went CJ, Jardine S, Naczynski LM, Kropinski AM.





  
Title:
        Physical mapping of several heat-shock genes in Pseudomonas aeruginosa and the cloning of the mopA (GroEL) gene.




  
PubMed:
        8857035


MedLine:
        




    
Source:
Can J Microbiol. 1996 Apr;42(4):326-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8857035

















    ReferenceID:35395




  
Author/Investigator(s):
        Liao X, Charlebois I, Ouellet C, Morency MJ, Dewar K, Lightfoot J, Foster J, Siehnel R, Schweizer H, Lam JS, Hancock RE, Levesque RC.





  
Title:
        Physical mapping of 32 genetic markers on the Pseudomonas aeruginosa PAO1 chromosome.




  
PubMed:
        8581173


MedLine:
        




    
Source:
Microbiology. 1996 Jan;142 ( Pt 1):79-86.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8581173









           
Homologs By Global Alignment 

           

       



     
Gene ID:2765
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4505
                           PA0376_tr
                           translation of PA0376
                           284
                           99.99
                           99.99
                           0
                           1447.0
     

     
     
130001
                           gb|AAG03765.1|AE004475_7
                           (AE004475) sigma factor RpoH [Pseudomonas aeruginosa PAO1]
                           284
                           99.99
                           99.99
                           0
                           1447.0
     

     
     
130002
                           gb|AAB33935.1|
                           (S77322) heat-shock sigma factor sigma 32; RpoH [Pseudomonas aeruginosa]
                           284
                           99.99
                           99.99
                           0
                           1447.0
     

     
     
130003
                           dbj|BAA08769.1|
                           (D50052) heat-shock sigma factor [Pseudomonas aeruginosa]
                           284
                           99.99
                           99.99
                           0
                           1447.0
     

     
     
130004
                           gb|AAA92723.1|
                           (U09560) RpoH (sigma 32) [Pseudomonas aeruginosa]
                           284
                           99.64
                           99.64
                           0
                           1443.0
     

     






      

          
GC ORFID: 45767How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0376Glimmer Score: 

          
Start: 6236761Stop: 6237615

          
Length: 855


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0376 translation of PA0376Homolog Bit Score 561.0

          
Other Homologs:  psyr_15may02_Scaffold6_revised_gene6609 (ORF: BLASTX 508.0), t_PA0376 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCACTTCTTTGCAACCTGTACATGCCTTGGTTCCAGGCGCAAACCTGGAAGCCTATGTGCACTCGGTG 
AACAGCATTCCGCTGTTGTCGCCGGAGCAGGAGCGTGAACTGGCCGAACGCCTCTTCTATCAGCAAGACCTG 
GAAGCGGCGCGGCAGATGGTGTTGGCGCACCTGCGCTTCGTTGTTCATATCGCCAAGAGTTATTCGGGGTAC 
GGCCTGGCCCAGGCCGACCTGATCCAGGAAGGCAACGTCGGCCTGATGAAGGCCGTGAAGCGTTTCAACCCG 
GAAATGGGCGTTCGCCTGGTGTCCTTCGCCGTGCACTGGATCAAGGCGGAGATCCACGAGTTCATCCTGCGC 
AACTGGCGGATCGTCAAGGTCGCCACCACCAAGGCGCAGCGCAAGCTGTTCTTCAACCTGCGCAGCCAGAAG 
AAGCGCCTGGCCTGGTTGAACAACGAGGAAGTCCATCGCGTCGCCGAGAGCCTGGGGGTCGAGCCCCGCGAA 
GTGCGCGAGATGGAAAGCCGCCTGACCGGCCAGGACATGGCGTTCGACCCGGCCGCCGACGCGGACGACGAG 
AGCGCCTACCAGTCGCCGGCGCATTACCTCGAAGACCACCGCTACGACCCGGCGCGCCAGTTGGAAGACGCC 
GACTGGAGCGACAGCTCCAGCGCCAACCTGCACGAGGCGCTGGAAGGCCTCGACGAGCGCAGCCGCGACATT 
CTCCAGCAGCGCTGGCTGTCCGAGGAGAAGGCCACGCTGCACGACCTGGCGGAAAAGTACAACGTCTCCGCC 
GAGCGTATCCGGCAGCTGGAAAAGAACGCCATGAGCAAGCTGAAAGGGCGGATTCTCGCCTGA