ViewGene
Locus Name:
GeneID:
Location:

GeneID:3172
TrivialName: PA14_32130
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_32130
PAO1 Ortholog Locus:PA2515
Sequence Length:762
Protein Length:253
Start: 2794217
Stop: 2794978
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05903.1|AE004678_9 (AE004678) cis-1,2-dihydroxycyclohexa-3,4-diene carboxylate dehydrogenase [Pseudomonas aeruginosa PAO1]
Identities = 253/253 (100%), Positives = 253/253 (100%)
Sequence:
ATGAACGACAGATTCCGCGACAAGGTCGCCCTGGTCAGCGGCGCCGCCCAGGGCATCGGCCTGGGCGTGGCC
CGGCGCCTGCTGGAGGAAGGCGCGCGGGTGGTGGCGGTGGACCGCTCCGAGCTGGTCCACGAATTGGCCGGC
GACGCCTGCCTGTGCCTGACCGCCGACCTGGAGCGCTATGCCGAATGCCAGCGGGTACTGGAGCGGACCCTG
GAGCGTTTCGGCCGGCTGGACATCCTGGTCAACAACGTCGGCGGCACCCTCTGGGCGAAGCCCTACCAGCAC
TACGCCGAGGACGAGATCGAGGCCGAGCTGCGGCGTTCGCTGCTGCCCACCTTGTGGTGTTGCCGCGCGGCG
CTGCCGGCGATGCTGGGGCAGGGTAGCGGGGCGATCGTCAACGTCTCGTCGGTTGCCACCCGCGGGGTCAAC
CGGGTGCCCTATGGCGCCGCCAAGGGCGGGGTGAACGCGCTGACCGCCTGCCTGGCGTTCGAGACCGCCGAC
CAGGGCATCCGCGTCAACGCGGTGGCGCCGGGCGGCACCGACGCGCCGCCGCGAAGGATTCCGCGCAACGCC
GCGGCGCAGAGCGAGGAGGAGCGGCGCTGGTATCGACAGATCGTCGAGCAGACCCTCGACAGCAGCCTGATG
AAGCGCTACGGCAGCATCGACGAGCAGGTCGCGGCGATCCTTTTCCTCGCCTCCGACGAGGCGTCCTACATC
ACCGGCGTGACCCTGCCGGTAGCTGGCGGCGACCTCGGCTGA
Translation:
MNDRFRDKVALVSGAAQGIGLGVARRLLEEGARVVAVDRSELVHELAGDACLCLTADLERYAECQRVLERTL
ERFGRLDILVNNVGGTLWAKPYQHYAEDEIEAELRRSLLPTLWCCRAALPAMLGQGSGAIVNVSSVATRGVN
RVPYGAAKGGVNALTACLAFETADQGIRVNAVAPGGTDAPPRRIPRNAAAQSEEERRWYRQIVEQTLDSSLM
KRYGSIDEQVAAILFLASDEASYITGVTLPVAGGDLG*
AnnotationID:3180GeneID:3172
AnnotatorUID: diggins
Modification Date/Time: 2005-04-29 09:09:39
Gene Name:xylL
Confidence Code:2
GeneProduct:cis-1,2-dihydroxycyclohexa-3,4-diene carboxylate dehydrogenase
Cell Localization:()
Synonyms:benD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:cis-diol dehydrogenase
Functional Category Confidence Code:5
COGs:pfam00106,COG1028
Secondary Functional Category(ies):central intermediary metabolism
EC Number:1.3.1.25
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAK52290.1| (AY026914) benzoate diol dehydrogenase BenD [Pseudomonas putida]
          Length = 253

 Score =  498 bits (1283), Expect = e-140
 Identities = 252/253 (99%), Positives = 252/253 (99%)

>gb|AAD31450.2|AF134348_4 (AF134348) 1,2-dihydroxycyclohexa-3,5-diene carboxylate
           dehydrogenase [Pseudomonas putida]
          Length = 258

 Score =  396 bits (1017), Expect = e-110
 Identities = 195/258 (75%), Positives = 225/258 (87%), Gaps = 5/258 (1%)

>dbj|BAB70701.1| (AB055706) 2-hydro-1,2-dihydroxybenzoate (DHB) dehydrogenase
           [Rhodococcus sp. RHA1]
          Length = 264

 Score =  330 bits (847), Expect = 4e-90
 Identities = 160/256 (62%), Positives = 203/256 (79%), Gaps = 6/256 (2%)






 
Structural Features:
pfam00106, adh_short, short chain dehydrogenase.
CD-Length = 247 residues,  99.6% aligned
Score =  190 bits (483), Expect = 2e-49
Identities = 102/252 (40%), Positives = 132/252 (52%), Gaps = 17/252 (6%)

COG1028, FabG, Dehydrogenases with different specificities 
(related to short-chain alcohol dehydrogenases) 
[Secondary metabolites biosynthesis, transport, and catabolism]
CD-Length = 251 residues,  99.2% aligned
Score =  153 bits (387), Expect = 2e-38
Identities = 97/262 (37%), Positives = 127/262 (48%), Gaps = 27/262 (10%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6347




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23489




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33072




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3172_cdd.html


    		




 
URL:

















    ReferenceID:34511




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





  
Title:
        cis-diol dehydrogenases encoded by the TOL pWW0 plasmid xylL gene and the Acinetobacter calcoaceticus chromosomal benD gene are members of the short-chain alcohol dehydrogenase superfamily.




  
PubMed:
        1740120


MedLine:
        




    
Source:
Eur J Biochem. 1992 Feb 15;204(1):113-20.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1740120

















    ReferenceID:34512




  
Author/Investigator(s):
        Jeffrey WH, Cuskey SM, Chapman PJ, Resnick S, Olsen RH.





  
Title:
        Characterization of Pseudomonas putida mutants unable to catabolize benzoate: cloning and characterization of Pseudomonas genes involved in benzoate catabolism and isolation of a chromosomal DNA fragment able to substitute for xylS in activation of the TO




  
PubMed:
        1629155


MedLine:
        




    
Source:
J Bacteriol. 1992 Aug;174(15):4986-96.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1629155









           
Homologs By Global Alignment 

           

       



     
Gene ID:3172
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5101
                           PA2515_tr
                           translation of PA2515
                           253
                           99.99
                           99.99
                           0
                           1287.0
     

     
     
143128
                           gb|AAG05903.1|AE004678_9
                           (AE004678) cis-1,2-dihydroxycyclohexa-3,4-diene carboxylate dehydrogenase [Pseudomonas aeruginosa PAO1]
                           253
                           99.99
                           99.99
                           0
                           1287.0
     

     
     
143129
                           gb|AAK52290.1|
                           (AY026914) benzoate diol dehydrogenase BenD [Pseudomonas putida]
                           253
                           99.60
                           99.60
                           0
                           1283.0
     

     
     
143130
                           gb|AAF63451.1|AF218267_8
                           (AF218267) cis-diol dehydrogenase [Pseudomonas putida]
                           253
                           79.05
                           89.32
                           0
                           1042.0
     

     
     
143131
                           gb|AAN68772.1|AE016509_5
                           (AE016785) cis-diol dehydrogenase [Pseudomonas putida KT2440]
                           253
                           78.65
                           89.32
                           0
                           1036.0
     

     






      

          
GC ORFID: 46174How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2515Glimmer Score: 

          
Start: 2159707Stop: 2158946

          
Length: 762


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2515 translation of PA2515Homolog Bit Score 500.0

          
Other Homologs:  t_PA2515 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACGACAGATTCCGCGACAAGGTCGCCCTGGTCAGCGGCGCCGCCCAGGGCATCGGCCTGGGCGTGGCC 
CGGCGCCTGCTGGAGGAAGGCGCGCGGGTGGTGGCGGTGGACCGCTCCGAGCTGGTCCACGAATTGGCCGGC 
GACGCCTGCCTGTGCCTGACCGCCGACCTGGAGCGCTATGCCGAATGCCAGCGGGTACTGGAGCGGACCCTG 
GAGCGTTTCGGCCGGCTGGACATCCTGGTCAACAACGTCGGCGGCACCCTCTGGGCGAAGCCCTACCAGCAC 
TACGCCGAGGACGAGATCGAGGCCGAGCTGCGGCGTTCGCTGCTGCCCACCTTGTGGTGTTGCCGCGCGGCG 
CTGCCGGCGATGCTGGGGCAGGGTAGCGGGGCGATCGTCAACGTCTCGTCGGTTGCCACCCGCGGGGTCAAC 
CGGGTGCCCTATGGCGCCGCCAAGGGCGGGGTGAACGCGCTGACCGCCTGCCTGGCGTTCGAGACCGCCGAC 
CAGGGCATCCGCGTCAACGCGGTGGCGCCGGGCGGCACCGACGCGCCGCCGCGAAGGATTCCGCGCAACGCC 
GCGGCGCAGAGCGAGGAGGAGCGGCGCTGGTATCGACAGATCGTCGAGCAGACCCTCGACAGCAGCCTGATG 
AAGCGCTACGGCAGCATCGACGAGCAGGTCGCGGCGATCCTTTTCCTCGCCTCCGACGAGGCGTCCTACATC 
ACCGGCGTGACCCTGCCGGTAGCTGGCGGCGACCTCGGCTGA