ViewGene
Locus Name:
GeneID:
Location:

GeneID:1254
TrivialName: PA14_71470
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71470
PAO1 Ortholog Locus:PA5416
Sequence Length:1251
Protein Length:416
Start: 6368287
Stop: 6369537
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08801.1|AE004954_3 (AE004954) sarcosine oxidase beta subunit [Pseudomonas aeruginosa PAO1]
Identities = 415/416 (99%), Positives = 416/416 (100%)
Sequence:
ATGCAACGCTACTCCGGCTTCGGCCTGTTAAAGCATTCACTGAGCCATCACGAGAACTGGCAACGCATGTGG
CGCACGCCCACGCCGAAGCCGGTCTACGACGTGGTCATCGTCGGCGGCGGCGGGCACGGCCTGGCCACCGCC
TACTACCTGGCCAAGGAACACGGCATCAGCAACGTGGCGGTAGTCGAGAAAGGTTGGCTGGGCGGCGGCAAC
ACCGCGCGCAACACCACCATCGTGCGCTCCAACTACCTGTGGGACGAGTCCGCGCTGCTCTACGAACACGCG
ATGAAGCTGTGGGAGGGCCTGTCCCAGGACCTCAACTACAACGTGATGTTCTCCCAGCGCGGGGTCTACAAC
CTCTGCCACACCCTCCAGGACATGCGCGACGGCGAGCGCCGGGTCAGCGCCAACCGCCTCAACGGCGTCGAC
GGCGAATTGTTGAACGCGCAGCAGGTGGCGGAGGAGATTCCCTACCTGGACTGCAGCAAGAACACCCGCTAC
CCGATCATGGGCGCGACCATCCAGCGTCGCGGCGGCGTCGCCCGCCATGATGCGGTGGCCTGGGGCTTCGCC
CGCGCCGCCGATGCCCTCGGCGTGGACCTGATCCAGCAGACCGAAGTCACCGGCTTCCGCAAGCAGGACGGC
GCGGTGATCGGCGTCGAGACCAACCGCGGCTTCATCGGCGCGCGTCGTGTCGGGGTGGTCACCGCCGGCAAC
TCCGGGCACATGGCCAGGCTCGCCGGCTTCCGCCTGCCGCTGGAGTCGCACCCGTTGCAGGCGCTGGTCTCC
GAGCCGCTGAAGCCGATCATCGACAGCGTGATCATGTCCAACGCCGTGCATGGCTACATCAGCCAGTCGGAC
AAAGGCGACCTGGTCATCGGCGCCGGCATCGACGGCTACAACGGCTACGGCCAGCGCGGCTCGTACCCGGTG
ATCGAGCACACCCTGCAAGCCATCGTCGAGATGTTCCCGGTGCTCTCGCGGGTACGCATGAACCGCCAGTGG
GGCGGCATCGTCGACACCACCCCGGACGCCTGCCCGATCATCGGCAAGACTCCGGTGCAGAACCTGTTCTTC
AACTGCGGCTGGGGCACCGGCGGCTTCAAGGCCACTCCCGGCTCCGGAAACGTCTTCGCCGCCACCCTGGCC
AAGGGCGAACCGCATCCGCTGGCCGCGCCCTTCTCCATCGAACGCTTCCACAGCGGTGCGCTGATCGACGAG
CACGGCGCGGCGGCAGTGGCGCACTGA
Translation:
MQRYSGFGLLKHSLSHHENWQRMWRTPTPKPVYDVVIVGGGGHGLATAYYLAKEHGISNVAVVEKGWLGGGN
TARNTTIVRSNYLWDESALLYEHAMKLWEGLSQDLNYNVMFSQRGVYNLCHTLQDMRDGERRVSANRLNGVD
GELLNAQQVAEEIPYLDCSKNTRYPIMGATIQRRGGVARHDAVAWGFARAADALGVDLIQQTEVTGFRKQDG
AVIGVETNRGFIGARRVGVVTAGNSGHMARLAGFRLPLESHPLQALVSEPLKPIIDSVIMSNAVHGYISQSD
KGDLVIGAGIDGYNGYGQRGSYPVIEHTLQAIVEMFPVLSRVRMNRQWGGIVDTTPDACPIIGKTPVQNLFF
NCGWGTGGFKATPGSGNVFAATLAKGEPHPLAAPFSIERFHSGALIDEHGAAAVAH*
AnnotationID:1263GeneID:1254
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 12:12:36
Gene Name:soxB
Confidence Code:2
GeneProduct:sarcosine oxidase, beta subunit
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0665
Secondary Functional Category(ies):amino acid transport and metabolism
EC Number:1.5.3.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54004.1| (AE016857) sarcosine oxidase, beta subunit [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 416

 Score =  802 bits (2071), Expect = 0.0
 Identities = 385/416 (92%), Positives = 403/416 (96%)

>gb|AAN65954.1|AE016223_8 (AE016775) sarcosine oxidase, beta subunit [Pseudomonas putida
           KT2440]
          Length = 416

 Score =  797 bits (2058), Expect = 0.0
 Identities = 384/416 (92%), Positives = 404/416 (97%)

>emb|CAD17197.1| (AL646076) PROBABLE SARCOSINE OXIDASE (BETA SUBUNIT) OXIDOREDUCTASE
           PROTEIN [Ralstonia solanacearum]
          Length = 414

 Score =  649 bits (1675), Expect = 0.0
 Identities = 310/416 (74%), Positives = 357/416 (85%), Gaps = 2/416 (0%)






 
Structural Features:
COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) 
[Amino acid transport and metabolism]
CD-Length = 387 residues, 100.0% aligned
Score =  212 bits (540), Expect = 6e-56
Identities = 116/394 (29%), Positives = 173/394 (43%), Gaps = 23/394 (5%)








   
Genomic Context:






   
Comment:


















    ReferenceID:2511




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19654




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34692




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1254_cdd.html


    		




 
URL:

















    ReferenceID:35647




  
Author/Investigator(s):
        Denome SA, Oldfield C, Nash LJ, Young KD.





  
Title:
        Characterization of the desulfurization genes from Rhodococcus sp. strain IGTS8.




  
PubMed:
        7961424


MedLine:
        




    
Source:
J Bacteriol. 1994 Nov;176(21):6707-16.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7961424









           
Homologs By Global Alignment 

           

       



     
Gene ID:1254
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2285
                           PA5416_tr
                           translation of PA5416
                           416
                           99.75
                           99.99
                           0
                           2203.0
     

     
     
74370
                           gb|AAG08801.1|AE004954_3
                           (AE004954) sarcosine oxidase beta subunit [Pseudomonas aeruginosa PAO1]
                           416
                           99.75
                           99.99
                           0
                           2203.0
     

     
     
74371
                           gb|AAO54004.1|
                           (AE016857) sarcosine oxidase, beta subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           416
                           92.54
                           96.87
                           0
                           2071.0
     

     
     
74372
                           gb|AAN65954.1|AE016223_8
                           (AE016775) sarcosine oxidase, beta subunit [Pseudomonas putida KT2440]
                           416
                           92.30
                           97.11
                           0
                           2058.0
     

     
     
74373
                           emb|CAD17197.1|
                           (AL646076) PROBABLE SARCOSINE OXIDASE (BETA SUBUNIT) OXIDOREDUCTASE PROTEIN [Ralstonia solanacearum]
                           416
                           74.51
                           85.81
                           2
                           1677.0
     

     






      

          
GC ORFID: 44256How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5416Glimmer Score: 

          
Start: 5631976Stop: 5633226

          
Length: 1251


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5416 translation of PA5416Homolog Bit Score 853.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene263 (ORF: BLASTX 349.0), t_PA5416 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAACGCTACTCCGGCTTCGGCCTGTTAAAGCATTCACTGAGCCATCACGAGAACTGGCAACGCATGTGG 
CGCACGCCCACGCCGAAGCCGGTCTACGACGTGGTCATCGTCGGCGGCGGCGGGCACGGCCTGGCCACCGCC 
TACTACCTGGCCAAGGAACACGGCATCAGCAACGTGGCGGTAGTCGAGAAAGGTTGGCTGGGCGGCGGCAAC 
ACCGCGCGCAACACCACCATCGTGCGCTCCAACTACCTGTGGGACGAGTCCGCGCTGCTCTACGAACACGCG 
ATGAAGCTGTGGGAGGGCCTGTCCCAGGACCTCAACTACAACGTGATGTTCTCCCAGCGCGGGGTCTACAAC 
CTCTGCCACACCCTCCAGGACATGCGCGACGGCGAGCGCCGGGTCAGCGCCAACCGCCTCAACGGCGTCGAC 
GGCGAATTGTTGAACGCGCAGCAGGTGGCGGAGGAGATTCCCTACCTGGACTGCAGCAAGAACACCCGCTAC 
CCGATCATGGGCGCGACCATCCAGCGTCGCGGCGGCGTCGCCCGCCATGATGCGGTGGCCTGGGGCTTCGCC 
CGCGCCGCCGATGCCCTCGGCGTGGACCTGATCCAGCAGACCGAAGTCACCGGCTTCCGCAAGCAGGACGGC 
GCGGTGATCGGCGTCGAGACCAACCGCGGCTTCATCGGCGCGCGTCGTGTCGGGGTGGTCACCGCCGGCAAC 
TCCGGGCACATGGCCAGGCTCGCCGGCTTCCGCCTGCCGCTGGAGTCGCACCCGTTGCAGGCGCTGGTCTCC 
GAGCCGCTGAAGCCGATCATCGACAGCGTGATCATGTCCAACGCCGTGCATGGCTACATCAGCCAGTCGGAC 
AAAGGCGACCTGGTCATCGGCGCCGGCATCGACGGCTACAACGGCTACGGCCAGCGCGGCTCGTACCCGGTG 
ATCGAGCACACCCTGCAAGCCATCGTCGAGATGTTCCCGGTGCTCTCGCGGGTACGCATGAACCGCCAGTGG 
GGCGGCATCGTCGACACCACCCCGGACGCCTGCCCGATCATCGGCAAGACTCCGGTGCAGAACCTGTTCTTC 
AACTGCGGCTGGGGCACCGGCGGCTTCAAGGCCACTCCCGGCTCCGGAAACGTCTTCGCCGCCACCCTGGCC 
AAGGGCGAACCGCATCCGCTGGCCGCGCCCTTCTCCATCGAACGCTTCCACAGCGGTGCGCTGATCGACGAG 
CACGGCGCGGCGGCAGTGGCGCACTGA