ViewGene
Locus Name:
GeneID:
Location:

GeneID:4240
TrivialName: PA14_32100
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_32100
PAO1 Ortholog Locus:PA2517
Sequence Length:489
Protein Length:162
Start: 2792656
Stop: 2793144
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAK52288.1| (AY026914) benzoate 1,2-dioxygenase small subunit BenB [Pseudomonas putida]
Identities = 162/162 (100%), Positives = 162/162 (100%)
Sequence:
ATGAGCCTGGGCTACGACGCCCTGCGCGATTTCCTCTACCGCGAGGCGCGCTATCTCGACGACAAGGATTGG
GACGCCTGGCTGGCGTTGTACGCCGCGGACGCCAGTTTCTGGATGCCGTCCTGGGACGACCGCGACCAGCTC
ACCGAGGACCCGCAGCGGGAAATCTCGCTGATCTGGTACGGCAACCGCGGCGGTCTGGAGGACCGGGTATTC
CGCATCCGCACCGAGCGCTCCAGCGCGACCCTGCCGGACACCCGCACCTCGCACAACCTGAGCAACATCGAA
CTGCTCGGTGAGGACGACGGCATCTGCCGCGCGCGCTGCAACTGGCACACCCTGAGCTATCGCTACAAGACC
GTGGACAGCTACTTCGGCACCACCTTCTACGACCTCGACGTACGCGGCGAGAGTCCGCTGATCAAGGCCAAG
AAAGTGATCCTGAAGAACGACTACGTTCGCCAGCTGATCGACGTCTACCACGTCTGA
Translation:
MSLGYDALRDFLYREARYLDDKDWDAWLALYAADASFWMPSWDDRDQLTEDPQREISLIWYGNRGGLEDRVF
RIRTERSSATLPDTRTSHNLSNIELLGEDDGICRARCNWHTLSYRYKTVDSYFGTTFYDLDVRGESPLIKAK
KVILKNDYVRQLIDVYHV*
AnnotationID:4246GeneID:4240
AnnotatorUID: diggins
Modification Date/Time: 2005-04-29 09:09:25
Gene Name:xylY
Confidence Code:2
GeneProduct:toluate 1,2-dioxygenase beta subunit
Cell Localization:()
Synonyms:benB
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:benzoate dioxygenase - beta subunit
Functional Category Confidence Code:5
COGs:COG5517,cd00667,pfam00866
Secondary Functional Category(ies):central intermediary metabolism
EC Number:1.14.12.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAD31448.1|AF134348_2 (AF134348) toluate 1,2 dioxygenase subunit [Pseudomonas putida]
          Length = 162

 Score =  278 bits (711), Expect = 9e-75
 Identities = 125/162 (77%), Positives = 144/162 (88%)

>gb|AAN76669.1| (AF435013) benzoate dioxygenase beta subunit [Streptomyces setonii]
          Length = 168

 Score =  217 bits (552), Expect = 2e-56
 Identities = 99/156 (63%), Positives = 123/156 (78%), Gaps = 1/156 (0%)

>dbj|BAB70699.1| (AB055706) benzoate 1,2-dioxygenase ISP beta subunit [Rhodococcus
           sp. RHA1]
          Length = 169

 Score =  198 bits (504), Expect = 9e-51
 Identities = 87/156 (55%), Positives = 116/156 (74%), Gaps = 1/156 (0%)






 
Structural Features:
COG5517, COG5517, Small subunit of phenylpropionate dioxygenase 
[Secondary metabolites biosynthesis, transport, and catabolism]
CD-Length = 164 residues,  98.8% aligned
Score =  217 bits (553), Expect = 6e-58
Identities = 93/162 (57%), Positives = 116/162 (71%)

cd00667, ring_hydroxylating_dioxygenases_beta, Ring hydroxylating dioxygenase beta subunit.
CD-Length = 160 residues,  98.8% aligned
Score =  154 bits (391), Expect = 4e-39
Identities = 58/158 (36%), Positives = 89/158 (56%), Gaps = 1/158 (0%)

pfam00866, Ring_hydroxyl_B, Ring hydroxylating beta subunit.
CD-Length = 145 residues,  99.3% aligned
Score =  152 bits (385), Expect = 2e-38
Identities = 60/144 (41%), Positives = 82/144 (56%), Gaps = 2/144 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:8481




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25623




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33074




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4240_cdd.html


    		




 
URL:

















    ReferenceID:34514




  
Author/Investigator(s):
        Harayama S, Rekik M, Bairoch A, Neidle EL, Ornston LN.





  
Title:
        Potential DNA slippage structures acquired during evolutionary divergence of Acinetobacter calcoaceticus chromosomal benABC and Pseudomonas putida TOL pWW0 plasmid xylXYZ, genes encoding benzoate dioxygenases.




  
PubMed:
        1938949


MedLine:
        




    
Source:
J Bacteriol. 1991 Dec;173(23):7540-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1938949

















    ReferenceID:34515




  
Author/Investigator(s):
        Harayama S, Rekik M, Timmis KN.





  
Title:
        Genetic analysis of a relaxed substrate specificity aromatic ring dioxygenase, toluate 1,2-dioxygenase, encoded by TOL plasmid pWW0 of Pseudomonas putida.




  
PubMed:
        3010045


MedLine:
        




    
Source:
Mol Gen Genet. 1986 Feb;202(2):226-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3010045









           
Homologs By Global Alignment 

           

       



     
Gene ID:4240
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
177346
                           gb|AAK52288.1|
                           (AY026914) benzoate 1,2-dioxygenase small subunit BenB [Pseudomonas putida]
                           162
                           99.99
                           99.99
                           0
                           877.0
     

     
     
6536
                           PA2517_tr
                           translation of PA2517
                           162
                           99.38
                           99.38
                           0
                           873.0
     

     
     
177347
                           gb|AAG05905.1|AE004678_11
                           (AE004678) toluate 1,2-dioxygenase beta subunit [Pseudomonas aeruginosa PAO1]
                           162
                           99.38
                           99.38
                           0
                           873.0
     

     
     
177351
                           gb|AAN68770.1|AE016509_3
                           (AE016785) benzoate dioxygenase, beta subunit [Pseudomonas putida KT2440]
                           162
                           78.39
                           88.88
                           1
                           710.0
     

     
     
177350
                           gb|AAF63449.1|AF218267_6
                           (AF218267) benzoate dioxygenase - beta subunit [Pseudomonas putida]
                           162
                           78.39
                           89.50
                           1
                           713.0
     

     






      

          
GC ORFID: 47242How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2517Glimmer Score: 

          
Start: 2161268Stop: 2160780

          
Length: 489


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2517 translation of PA2517Homolog Bit Score 340.0

          
Other Homologs:  t_PA2513 (ORF: BLASTX 145.0), t_PA2517 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCCTGGGCTACGACGCCCTGCGCGATTTCCTCTACCGCGAGGCGCGCTATCTCGACGACAAGGATTGG 
GACGCCTGGCTGGCGTTGTACGCCGCGGACGCCAGTTTCTGGATGCCGTCCTGGGACGACCGCGACCAGCTC 
ACCGAGGACCCGCAGCGGGAAATCTCGCTGATCTGGTACGGCAACCGCGGCGGTCTGGAGGACCGGGTATTC 
CGCATCCGCACCGAGCGCTCCAGCGCGACCCTGCCGGACACCCGCACCTCGCACAACCTGAGCAACATCGAA 
CTGCTCGGTGAGGACGACGGCATCTGCCGCGCGCGCTGCAACTGGCACACCCTGAGCTATCGCTACAAGACC 
GTGGACAGCTACTTCGGCACCACCTTCTACGACCTCGACGTACGCGGCGAGAGTCCGCTGATCAAGGCCAAG 
AAAGTGATCCTGAAGAACGACTACGTTCGCCAGCTGATCGACGTCTACCACGTCTGA