ViewGene
Locus Name:
GeneID:
Location:

GeneID:1428
TrivialName: PA14_05700
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_05700
PAO1 Ortholog Locus:PA0438
Sequence Length:1251
Protein Length:416
Start: 506649
Stop: 505399
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03827.1|AE004481_3 (AE004481) cytosine permease [Pseudomonas aeruginosa PAO1]
Identities = 416/416 (100%), Positives = 416/416 (100%)
Sequence:
ATGTCCGCAGACAGCAACTACAGCCAGCAACCGGTCCCGCTGGCGGCGCGCAAGAGCGCGCTGGCCCTGAGC
GTGGTGATGCTCGGCCTGACCTTCTTTTCCGCCAGCATGTGGACCGGCGGCACCCTCGGCACCGGCCTGAGC
TACGACGACTTCTTCCTCGCCGTGCTGCTGGGCAACCTGATGCTCGGCCTGTACACCGCGATCCTCGGCTTC
ATCGGCGCGCGCACCGGCCTTTCCACCCACCTGCTGGCGCATTACTCGTTCGGCAGCAAGGGCTCCTGGCTG
CCCTCGGCGTTGCTCGGCGGCACCCAGGTCGGCTGGTTCGGCGTCGGCGTAGCGATGTTCGCCATCCCGGTG
GCCAAGGCCACCGGCCTCGACGTCAACCTGCTGATCCTGGTTTCCGGAGCGCTGATGACCCTCACGGTGTTC
TTCGGCATCGCCGGTCTGACCCTGCTGTCGGCCATCGCGGTCCCGGCGATCGTCGTTCTCGGCAGCTACTCG
GTATGGCTCGCGGTGCGCGACGCCGGCGGCCTGGCGGCGCTGCAGCAGGTGACGCCGAGCGCGCCGCTGAGC
CTCTCGACCGCGATCGCCCTGGTGGTCGGCTCGTTCGTCAGCGCCGGCACCCTCACCGCCGACTTCGTCCGC
TTCGGCCGCAGCGCGCGTACCGCCGTGGTGGTGTGCCTGGTGGCGTTCTTCCTCGGCAACTCGCTGATGTTC
ATCTTCGGCGCGGCCGGCGCGGCGGCGGTGGGCAAGTCGGACATCTCCGACGTGATGATCGCCCAGGGCCTG
CTGATCCCGGCGATCCTGGTCCTCGGCCTGAACATCTGGACCACCAACGACAACGCGCTGTATGCCTCCGGC
CTCGGCTTCGCCAACATCACCGGCCTCTCCAGCCGCTTCCTGGCGATGCTCAACGGCGCCCTCGGCACCCTC
GCCGCGCTCTGGCTGTACAACCACTTCGTCGGCTGGCTGACCTTCCTCTCCGCCGCCATCCCGCCCATCGGC
GGGGTGATCATCGCCGACTACCTGAGTCGCCGCCGGCGCTACCGCCAGCACCCCTGCGCGGACATCCAGGCG
ATCAACTGGGCGGCGATCCTCGCCGTCGCCTGCGGCACCGCCGCCGGCCACTGGCTGCCGGGGATCGTGCCG
GTCAACGCGGTGCTCGGCGCCGCCATCGCCTACCTGCTGCTCAATCCCCTGCTGAGCCGCAGCCCGAACAAA
CCAGAAGAGGTCCTCCATGCTGATTGA
Translation:
MSADSNYSQQPVPLAARKSALALSVVMLGLTFFSASMWTGGTLGTGLSYDDFFLAVLLGNLMLGLYTAILGF
IGARTGLSTHLLAHYSFGSKGSWLPSALLGGTQVGWFGVGVAMFAIPVAKATGLDVNLLILVSGALMTLTVF
FGIAGLTLLSAIAVPAIVVLGSYSVWLAVRDAGGLAALQQVTPSAPLSLSTAIALVVGSFVSAGTLTADFVR
FGRSARTAVVVCLVAFFLGNSLMFIFGAAGAAAVGKSDISDVMIAQGLLIPAILVLGLNIWTTNDNALYASG
LGFANITGLSSRFLAMLNGALGTLAALWLYNHFVGWLTFLSAAIPPIGGVIIADYLSRRRRYRQHPCADIQA
INWAAILAVACGTAAGHWLPGIVPVNAVLGAAIAYLLLNPLLSRSPNKPEEVLHAD*
AnnotationID:1437GeneID:1428
AnnotatorUID: diggins
Modification Date/Time: 2005-03-25 12:12:49
Gene Name:codB
Confidence Code:2
GeneProduct:cytosine permease
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(18) Nucleotide biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1457,pfam02133
Secondary Functional Category(ies):transport of small molecules
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAL22202.1| (AE008853) putative purine-cytosine permease [Salmonella
           typhimurium LT2]
          Length = 417

 Score =  635 bits (1638), Expect = 0.0
 Identities = 316/416 (75%), Positives = 360/416 (86%)

>gb|AAN78934.1|AE016756_117 (AE016756) Cytosine permease [Escherichia coli CFT073]
          Length = 419

 Score =  628 bits (1620), Expect = e-179
 Identities = 309/404 (76%), Positives = 355/404 (87%)

>gb|AAO70786.1| (AE016845) cytosine permease [Salmonella enterica subsp. enterica
           serovar Typhi Ty2]
          Length = 417

 Score =  627 bits (1617), Expect = e-179
 Identities = 312/416 (75%), Positives = 356/416 (85%)






 
Structural Features:
COG1457, CodB, Purine-cytosine permease and related proteins 
[Nucleotide transport and metabolism]
CD-Length = 442 residues,  98.6% aligned
Score =  286 bits (734), Expect = 3e-78
Identities = 188/436 (43%), Positives = 245/436 (56%), Gaps = 21/436 (4%)

pfam02133, Transp_cyt_pur, Permease for cytosine/purines, uracil, 
thiamine, allantoin.
CD-Length = 436 residues,  99.8% aligned
Score =  167 bits (425), Expect = 2e-42
Identities = 110/435 (25%), Positives = 172/435 (39%), Gaps = 48/435 (11%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2859




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20004




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33760




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1428_cdd.html


    		




 
URL:

















    ReferenceID:35351




  
Author/Investigator(s):
        Danielsen S, Kilstrup M, Barilla K, Jochimsen B, Neuhard J.





  
Title:
        Characterization of the Escherichia coli codBA operon encoding cytosine permease and cytosine deaminase.




  
PubMed:
        1640834


MedLine:
        




    
Source:
Mol Microbiol. 1992 May;6(10):1335-44.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1640834









           
Homologs By Global Alignment 

           

       



     
Gene ID:1428
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2588
                           PA0438_tr
                           translation of PA0438
                           416
                           99.99
                           99.99
                           0
                           2088.0
     

     
     
81466
                           gb|AAG03827.1|AE004481_3
                           (AE004481) cytosine permease [Pseudomonas aeruginosa PAO1]
                           416
                           99.99
                           99.99
                           0
                           2088.0
     

     
     
81467
                           gb|AAL22202.1|
                           (AE008853) putative purine-cytosine permease [Salmonella typhimurium LT2]
                           417
                           75.77
                           86.33
                           1
                           1638.0
     

     
     
81475
                           emb|CAD07850.1|
                           (AL627278) cytosine permease [Salmonella enterica subsp. enterica serovar Typhi]
                           417
                           74.82
                           85.37
                           1
                           1617.0
     

     
     
81474
                           gb|AAO70786.1|
                           (AE016845) cytosine permease [Salmonella enterica subsp. enterica serovar Typhi Ty2]
                           417
                           74.82
                           85.37
                           1
                           1617.0
     

     






      

          
GC ORFID: 44430How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0438Glimmer Score: 

          
Start: 6307991Stop: 6306741

          
Length: 1251


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0438 translation of PA0438Homolog Bit Score 808.0

          
Other Homologs:  t_PA0438 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCGCAGACAGCAACTACAGCCAGCAACCGGTCCCGCTGGCGGCGCGCAAGAGCGCGCTGGCCCTGAGC 
GTGGTGATGCTCGGCCTGACCTTCTTTTCCGCCAGCATGTGGACCGGCGGCACCCTCGGCACCGGCCTGAGC 
TACGACGACTTCTTCCTCGCCGTGCTGCTGGGCAACCTGATGCTCGGCCTGTACACCGCGATCCTCGGCTTC 
ATCGGCGCGCGCACCGGCCTTTCCACCCACCTGCTGGCGCATTACTCGTTCGGCAGCAAGGGCTCCTGGCTG 
CCCTCGGCGTTGCTCGGCGGCACCCAGGTCGGCTGGTTCGGCGTCGGCGTAGCGATGTTCGCCATCCCGGTG 
GCCAAGGCCACCGGCCTCGACGTCAACCTGCTGATCCTGGTTTCCGGAGCGCTGATGACCCTCACGGTGTTC 
TTCGGCATCGCCGGTCTGACCCTGCTGTCGGCCATCGCGGTCCCGGCGATCGTCGTTCTCGGCAGCTACTCG 
GTATGGCTCGCGGTGCGCGACGCCGGCGGCCTGGCGGCGCTGCAGCAGGTGACGCCGAGCGCGCCGCTGAGC 
CTCTCGACCGCGATCGCCCTGGTGGTCGGCTCGTTCGTCAGCGCCGGCACCCTCACCGCCGACTTCGTCCGC 
TTCGGCCGCAGCGCGCGTACCGCCGTGGTGGTGTGCCTGGTGGCGTTCTTCCTCGGCAACTCGCTGATGTTC 
ATCTTCGGCGCGGCCGGCGCGGCGGCGGTGGGCAAGTCGGACATCTCCGACGTGATGATCGCCCAGGGCCTG 
CTGATCCCGGCGATCCTGGTCCTCGGCCTGAACATCTGGACCACCAACGACAACGCGCTGTATGCCTCCGGC 
CTCGGCTTCGCCAACATCACCGGCCTCTCCAGCCGCTTCCTGGCGATGCTCAACGGCGCCCTCGGCACCCTC 
GCCGCGCTCTGGCTGTACAACCACTTCGTCGGCTGGCTGACCTTCCTCTCCGCCGCCATCCCGCCCATCGGC 
GGGGTGATCATCGCCGACTACCTGAGTCGCCGCCGGCGCTACCGCCAGCACCCCTGCGCGGACATCCAGGCG 
ATCAACTGGGCGGCGATCCTCGCCGTCGCCTGCGGCACCGCCGCCGGCCACTGGCTGCCGGGGATCGTGCCG 
GTCAACGCGGTGCTCGGCGCCGCCATCGCCTACCTGCTGCTCAATCCCCTGCTGAGCCGCAGCCCGAACAAA 
CCAGAAGAGGTCCTCCATGCTGATTGA