ViewGene
Locus Name:
GeneID:
Location:

GeneID:4772
TrivialName: PA14_10610
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_10610
PAO1 Ortholog Locus:PA4125
Sequence Length:393
Protein Length:130
Start: 914317
Stop: 913925
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07512.1|AE004829_2 (AE004829) 5-carboxymethyl-2-hydroxymuconate isomerase [Pseudomonas aeruginosa PAO1]
Identities = 129/130 (99%), Positives = 130/130 (100%)
Sequence:
ATGCCGCACTTCATCGCCGAATACACCGACAACATCGAAGCCGAAGCCGACCTGCCCGGCCTGTTCGAGAAG
GTCCACGCCTGCCTTGGCGCCAGCGGCGTGTTCCCACTCGGCGGCATCCGCAGCCGCGGCGTGCGCCTGGAC
ACCTGGCGCATGGCCGACGGCAAGCACGACTACGCCTTCGTCCACATGACCCTGAAAGTCGGCGCCGGTCGC
GACCTGGAGACTCGCCGGCAAGTCGCCGAGGCACTTTTCGAGGTGATCACCGCGCACTTCGCCGAGCTCCAG
GCGCGACGCCTGCTGGCGCTGTCCTTCGAACTCACCGAACTGGACGCGGAGCTGAACTACAAGCGCAACAAC
GTGCATGAATTCCTGAACAACCCGGCGGACTGA
Translation:
MPHFIAEYTDNIEAEADLPGLFEKVHACLGASGVFPLGGIRSRGVRLDTWRMADGKHDYAFVHMTLKVGAGR
DLETRRQVAEALFEVITAHFAELQARRLLALSFELTELDAELNYKRNNVHEFLNNPAD*
AnnotationID:4777GeneID:4772
AnnotatorUID: diggins
Modification Date/Time: 2005-03-30 13:01:52
Gene Name:hpcD
Confidence Code:2
GeneProduct:5-carboxymethyl-2-hydroxymuconate isomerase
Cell Localization:()
Synonyms:hpaF
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:4-hydroxyphenylacetate catabolism protein
Functional Category Confidence Code:5
COGs:COG3232,pfam02962
Secondary Functional Category(ies):
EC Number:5.3.3.10
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAL20036.1| (AE008747) 4-hydroxyphenylacetate catabolism protein [Salmonella
           typhimurium LT2]
          Length = 126

 Score =  178 bits (451), Expect = 5e-45
 Identities = 85/122 (69%), Positives = 99/122 (81%)

>gb|AAD53498.1|AF144422_5 (AF144422) HpaF [Salmonella enterica subsp. enterica serovar
           Dublin]
          Length = 126

 Score =  178 bits (451), Expect = 5e-45
 Identities = 85/122 (69%), Positives = 99/122 (81%)

>emb|CAA37707.1| (X53666) 5-carboxymethyl-2-hydroxymuconate isomerase [Escherichia
           coli]
          Length = 126

 Score =  166 bits (421), Expect = 2e-41
 Identities = 81/122 (66%), Positives = 95/122 (77%)






 
Structural Features:
COG3232, HpaF, 5-carboxymethyl-2-hydroxymuconate isomerase 
[Amino acid transport and metabolism]
CD-Length = 127 residues, 100.0% aligned
Score =  192 bits (488), Expect = 2e-50
Identities = 85/127 (66%), Positives = 98/127 (77%)

pfam02962, CHMI, 5-carboxymethyl-2-hydroxymuconate isomerase.
CD-Length = 124 residues,  97.6% aligned
Score =  172 bits (438), Expect = 1e-44
Identities = 76/121 (62%), Positives = 92/121 (76%)







   
Genomic Context:






   
Comment:


















    ReferenceID:9544




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26685




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36860




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4772_cdd.html


    		




 
URL:

















    ReferenceID:36961




  
Author/Investigator(s):
        Prieto MA, Diaz E, Garcia JL.





  
Title:
        Molecular characterization of the 4-hydroxyphenylacetate catabolic pathway of Escherichia coli W: engineering a mobile aromatic degradative cluster.




  
PubMed:
        8550403


MedLine:
        




    
Source:
J Bacteriol. 1996 Jan;178(1):111-20.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8550403

















    ReferenceID:36969




  
Author/Investigator(s):
        Wang YZ, Lipscomb JD.





  
Title:
        Cloning, overexpression, and mutagenesis of the gene for homoprotocatechuate 2,3-dioxygenase from Brevibacterium fuscum.




  
PubMed:
        9179284


MedLine:
        




    
Source:
Protein Expr Purif. 1997 Jun;10(1):1-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9179284

















    ReferenceID:36970




  
Author/Investigator(s):
        Roper DI, Cooper RA.





  
Title:
        Purification, some properties and nucleotide sequence of 5-carboxymethyl-2-hydroxymuconate isomerase of Escherichia coli C.




  
PubMed:
        2194841


MedLine:
        




    
Source:
FEBS Lett. 1990 Jun 18;266(1-2):63-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=90306365&dopt=Abstract

















    ReferenceID:36975




  
Author/Investigator(s):
        Jenkins JR, Cooper RA.





  
Title:
        Molecular cloning, expression, and analysis of the genes of the homoprotocatechuate catabolic pathway of Escherichia coli C.




  
PubMed:
        3053656


MedLine:
        




    
Source:
 J Bacteriol. 1988 Nov;170(11):5317-24.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3053656









           
Homologs By Global Alignment 

           

       



     
Gene ID:4772
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7145
                           PA4125_tr
                           translation of PA4125
                           130
                           99.23
                           99.99
                           0
                           673.0
     

     
     
187446
                           gb|AAG07512.1|AE004829_2
                           (AE004829) 5-carboxymethyl-2-hydroxymuconate isomerase [Pseudomonas aeruginosa PAO1]
                           130
                           99.23
                           99.99
                           0
                           673.0
     

     
     
187447
                           gb|AAL20036.1|
                           (AE008747) 4-hydroxyphenylacetate catabolism protein [Salmonella typhimurium LT2]
                           130
                           65.38
                           76.15
                           4
                           450.0
     

     
     
187448
                           gb|AAD53498.1|AF144422_5
                           (AF144422) HpaF [Salmonella enterica subsp. enterica serovar Dublin]
                           130
                           65.38
                           76.15
                           4
                           450.0
     

     
     
187450
                           emb|CAD08230.1|
                           (AL627269) 5-carboxymethyl-2-hydroxymuconate delta-isomerase [Salmonella enterica subsp. enterica serovar Typhi]
                           130
                           63.84
                           75.38
                           4
                           441.0
     

     






      

          
GC ORFID: 47774How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4125Glimmer Score: 

          
Start: 4039620Stop: 4040012

          
Length: 393


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4125 translation of PA4125Homolog Bit Score 263.0

          
Other Homologs:  t_PA4125 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCCGCACTTCATCGCCGAATACACCGACAACATCGAAGCCGAAGCCGACCTGCCCGGCCTGTTCGAGAAG 
GTCCACGCCTGCCTTGGCGCCAGCGGCGTGTTCCCACTCGGCGGCATCCGCAGCCGCGGCGTGCGCCTGGAC 
ACCTGGCGCATGGCCGACGGCAAGCACGACTACGCCTTCGTCCACATGACCCTGAAAGTCGGCGCCGGTCGC 
GACCTGGAGACTCGCCGGCAAGTCGCCGAGGCACTTTTCGAGGTGATCACCGCGCACTTCGCCGAGCTCCAG 
GCGCGACGCCTGCTGGCGCTGTCCTTCGAACTCACCGAACTGGACGCGGAGCTGAACTACAAGCGCAACAAC 
GTGCATGAATTCCTGAACAACCCGGCGGACTGA