ViewGene
Locus Name:
GeneID:
Location:

GeneID:1208
TrivialName: PA14_70040
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70040
PAO1 Ortholog Locus:PA5304
Sequence Length:1299
Protein Length:432
Start: 6246725
Stop: 6245427
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08689.1|AE004943_5 (AE004943) D-amino acid dehydrogenase, small subunit [Pseudomonas aeruginosa PAO1]
Identities = 432/432 (100%), Positives = 432/432 (100%)
Sequence:
ATGCGAGTTCTGGTCCTTGGCAGCGGTGTCATCGGTACCGCCAGTGCGTATTACCTGGCCCGTGCCGGGTTC
GAGGTGGTGGTGGTCGACCGTCAGGACGGTCCCGCGCTGGAAACCAGCTTCGCCAACGCCGGCCAGGTGTCT
CCCGGCTACGCTTCGCCCTGGGCTGCCCCGGGCATTCCTCTGAAGGCCATGAAGTGGCTGCTGGAAAAGCAC
GCGCCGCTGGCCATCAAGCTCACCTCCGATCCCAGCCAGTACGCCTGGATGCTGCAGATGCTGCGCAACTGC
ACCGCCGAGCGCTACGCGGTGAACAAGGAGCGCATGGTCCGCCTGTCCGAGTACAGCCGCGATTGCCTCGAC
GAACTGCGCGCCGAGACCGGCATCGCCTACGAGGGCCGCACCCTCGGCACCACCCAACTGTTCCGCACCCAG
GCGCAGCTGGACGCCGCCGGCAAGGACATCGCCGTGCTCGAGCGCTCCGGCGTGCCCTACGAGGTTCTCGAC
CGCGACGGCATCGCCCGCGTCGAGCCGGCCCTGGCCAAGGTCGCCGACAAGCTGGTCGGCGCCCTGCGCCTG
CCCAACGACCAGACTGGCGACTGCCAGCTGTTCACCACCCGCCTGGCGGAAATGGCCAAGGGCCTGGGCGTG
GAGTTCCGCTTCGGCCAGAACATCGAACGCCTGGACTTCGCCGGCGACCGCATCAACGGTGTGCTGGTCAAC
GGCGAATTGCTCACCGCCGACCACTACGTGCTGGCCCTGGGCAGCTACTCGCCGCAACTGCTCAAGCCGCTG
GGTATCAAGGCTCCGGTCTATCCGCTGAAGGGCTACTCGCTGACCGTGCCGATCACCAACCCGGAGATGGCG
CCGACCTCGACCATCCTCGACGAGACCTACAAGGTGGCGATCACCCGCTTCGACCAGCGCATCCGCGTCGGC
GGCATGGCGGAAATCGCCGGCTTCGACCTGTCGCTGAACCCGCGCCGCCGCGAGACCCTGGAAATGATCACC
ACCGACCTCTATCCCGAGGGCGGCGACATCAGCCAGGCGACCTTCTGGACCGGCCTGCGCCCGGCGACCCCG
GATGGCACCCCGATCGTCGGCGCCACCCGCTACCGCAACCTGTTCCTCAATACCGGCCACGGCACCCTGGGT
TGGACCATGGCCTGCGGGTCGGGTCGCTACCTGGCCGACCTGATGGCGAAGAAGCGCCCGCAGATCAGCACC
GAAGGCCTGGATATTTCCCGCTACAGCAATTCCCCGGAGAACGCCAAGAATGCCCATCCAGCGCCAGCACAC
TAA
Translation:
MRVLVLGSGVIGTASAYYLARAGFEVVVVDRQDGPALETSFANAGQVSPGYASPWAAPGIPLKAMKWLLEKH
APLAIKLTSDPSQYAWMLQMLRNCTAERYAVNKERMVRLSEYSRDCLDELRAETGIAYEGRTLGTTQLFRTQ
AQLDAAGKDIAVLERSGVPYEVLDRDGIARVEPALAKVADKLVGALRLPNDQTGDCQLFTTRLAEMAKGLGV
EFRFGQNIERLDFAGDRINGVLVNGELLTADHYVLALGSYSPQLLKPLGIKAPVYPLKGYSLTVPITNPEMA
PTSTILDETYKVAITRFDQRIRVGGMAEIAGFDLSLNPRRRETLEMITTDLYPEGGDISQATFWTGLRPATP
DGTPIVGATRYRNLFLNTGHGTLGWTMACGSGRYLADLMAKKRPQISTEGLDISRYSNSPENAKNAHPAPAH
*
AnnotationID:1217GeneID:1208
AnnotatorUID: danlee
Modification Date/Time: 2006-01-31 11:11:55
Gene Name:dadA
Confidence Code:2
GeneProduct:D-amino acid dehydrogenase, small subunit
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0665
Secondary Functional Category(ies):energy metabolism
EC Number:1.4.99.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70835.1|AE016728_4 (AE016793) D-amino acid dehydrogenase, small subunit [Pseudomonas
           putida KT2440]
          Length = 434

 Score =  745 bits (1924), Expect = 0.0
 Identities = 370/432 (85%), Positives = 395/432 (91%)

>gb|AAO53655.1| (AE016856) D-amino acid dehydrogenase, small subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 433

 Score =  728 bits (1879), Expect = 0.0
 Identities = 362/432 (83%), Positives = 389/432 (90%)

>gb|AAM38531.1| (AE012019) D-amino acid dehydrogenase subunit [Xanthomonas
           axonopodis pv. citri str. 306]
          Length = 429

 Score =  603 bits (1555), Expect = e-172
 Identities = 295/416 (70%), Positives = 343/416 (82%)








 
Structural Features:
COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) 
[Amino acid transport and metabolism]
CD-Length = 387 residues,  97.4% aligned
Score =  190 bits (482), Expect = 3e-49
Identities = 130/426 (30%), Positives = 186/426 (43%), Gaps = 59/426 (13%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2419




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19562




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34796




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1208_cdd.html


    		




 
URL:

















    ReferenceID:35707




  
Author/Investigator(s):
        Alm RA, Mattick JS.





  
Title:
        Identification of two genes with prepilin-like leader sequences involved in type 4 fimbrial biogenesis in Pseudomonas aeruginosa.




  
PubMed:
        8682785


MedLine:
        




    
Source:
J Bacteriol. 1996 Jul;178(13):3809-17.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8682785

















    ReferenceID:35708




  
Author/Investigator(s):
        Lobocka M, Hennig J, Wild J, Klopotowski T.





  
Title:
        Organization and expression of the Escherichia coli K-12 dad operon encoding the smaller subunit of D-amino acid dehydrogenase and the catabolic alanine racemase.




  
PubMed:
        7906689


MedLine:
        




    
Source:
J Bacteriol. 1994 Mar;176(5):1500-10.






    
Reference Type: 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7906689









           
Homologs By Global Alignment 

           

       



     
Gene ID:1208
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2188
                           PA5304_tr
                           translation of PA5304
                           432
                           99.99
                           99.99
                           0
                           2233.0
     

     
     
72912
                           gb|AAG08689.1|AE004943_5
                           (AE004943) D-amino acid dehydrogenase, small subunit [Pseudomonas aeruginosa PAO1]
                           432
                           99.99
                           99.99
                           0
                           2233.0
     

     
     
72913
                           gb|AAN70835.1|AE016728_4
                           (AE016793) D-amino acid dehydrogenase, small subunit [Pseudomonas putida KT2440]
                           434
                           85.25
                           91.01
                           2
                           1924.0
     

     
     
72914
                           gb|AAO53655.1|
                           (AE016856) D-amino acid dehydrogenase, small subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           433
                           83.60
                           89.83
                           1
                           1879.0
     

     
     
72915
                           gb|AAN70011.1|AE016639_7
                           (AE016790) D-amino acid dehydrogenase, small subunit [Pseudomonas putida KT2440]
                           432
                           77.31
                           89.12
                           0
                           1787.0
     

     






      

          
GC ORFID: 44210How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5304Glimmer Score: 

          
Start: 5510414Stop: 5509116

          
Length: 1299


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA5304 translation of PA5304Homolog Bit Score 864.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3157 (ORF: BLASTX 748.0), t_PA5304 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGAGTTCTGGTCCTTGGCAGCGGTGTCATCGGTACCGCCAGTGCGTATTACCTGGCCCGTGCCGGGTTC 
GAGGTGGTGGTGGTCGACCGTCAGGACGGTCCCGCGCTGGAAACCAGCTTCGCCAACGCCGGCCAGGTGTCT 
CCCGGCTACGCTTCGCCCTGGGCTGCCCCGGGCATTCCTCTGAAGGCCATGAAGTGGCTGCTGGAAAAGCAC 
GCGCCGCTGGCCATCAAGCTCACCTCCGATCCCAGCCAGTACGCCTGGATGCTGCAGATGCTGCGCAACTGC 
ACCGCCGAGCGCTACGCGGTGAACAAGGAGCGCATGGTCCGCCTGTCCGAGTACAGCCGCGATTGCCTCGAC 
GAACTGCGCGCCGAGACCGGCATCGCCTACGAGGGCCGCACCCTCGGCACCACCCAACTGTTCCGCACCCAG 
GCGCAGCTGGACGCCGCCGGCAAGGACATCGCCGTGCTCGAGCGCTCCGGCGTGCCCTACGAGGTTCTCGAC 
CGCGACGGCATCGCCCGCGTCGAGCCGGCCCTGGCCAAGGTCGCCGACAAGCTGGTCGGCGCCCTGCGCCTG 
CCCAACGACCAGACTGGCGACTGCCAGCTGTTCACCACCCGCCTGGCGGAAATGGCCAAGGGCCTGGGCGTG 
GAGTTCCGCTTCGGCCAGAACATCGAACGCCTGGACTTCGCCGGCGACCGCATCAACGGTGTGCTGGTCAAC 
GGCGAATTGCTCACCGCCGACCACTACGTGCTGGCCCTGGGCAGCTACTCGCCGCAACTGCTCAAGCCGCTG 
GGTATCAAGGCTCCGGTCTATCCGCTGAAGGGCTACTCGCTGACCGTGCCGATCACCAACCCGGAGATGGCG 
CCGACCTCGACCATCCTCGACGAGACCTACAAGGTGGCGATCACCCGCTTCGACCAGCGCATCCGCGTCGGC 
GGCATGGCGGAAATCGCCGGCTTCGACCTGTCGCTGAACCCGCGCCGCCGCGAGACCCTGGAAATGATCACC 
ACCGACCTCTATCCCGAGGGCGGCGACATCAGCCAGGCGACCTTCTGGACCGGCCTGCGCCCGGCGACCCCG 
GATGGCACCCCGATCGTCGGCGCCACCCGCTACCGCAACCTGTTCCTCAATACCGGCCACGGCACCCTGGGT 
TGGACCATGGCCTGCGGGTCGGGTCGCTACCTGGCCGACCTGATGGCGAAGAAGCGCCCGCAGATCAGCACC 
GAAGGCCTGGATATTTCCCGCTACAGCAATTCCCCGGAGAACGCCAAGAATGCCCATCCAGCGCCAGCACAC 
TAA