ViewGene
Locus Name:
GeneID:
Location:

GeneID:823
TrivialName: PA14_56080
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_56080
PAO1 Ortholog Locus:PA4316
Sequence Length:1443
Protein Length:480
Start: 5009149
Stop: 5007707
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07704.1|AE004848_3 (AE004848) exodeoxyribonuclease I [Pseudomonas aeruginosa PAO1]
Identities = 477/480 (99%), Positives = 479/480 (99%)
Sequence:
ATGACCGTGAACGCGAGTATTTTTTGGTACGACTACGAAACCACCGGCATCGACCCCCGCCGCGACCGGCCG
TTGCAGATCGCCGGGATCCGCACGGACGAGGCGCTGAACGAGATCGGCGAGCCGATGAACCTGTATTGCCGT
CCCAGCGACGATATCCTGCCCCACCCTATGGCTTGCCTGATCACCGGCATCACTCCCCAGCGGCTGGCCGAG
CGGGGGCTGTCCGAGGCCGACTTCATGACCCGGGTACACGCCCAACTGGCGCAGCCGGCGACCTGCGTGGCC
GGCTACAACTCCCTGCGCTTCGACGACGAAGTGACGCGCTACAGCCTGTACCGCAACTTCTTCGATCCCTAC
GCACGCGAGTGGCAAGGCGGCAATAGCCGCTGGGACCTGATCGACATGGTCCGTACCGCCTATGCCCTGCGC
CCGGAGGGCATCCAGTGGCCGCAGCTGGACGGCCGGCTGTCGCTGAAGCTGGAAATGCTCACCGCGGCGAAC
GGCCTGGAGCATGGGCAGGCCCACGACGCGCTTTCCGATGTTCGCGCCACCATTGCCCTGGCCCGCCTGATC
CGTCAGCGCCAGCCGCGCCTGTACGATTACCTCTACCAGTTGCGCAGTAAGCACAAGGTGCTCGACCAGGTG
CGCCTGCTGCAGCCGCTGGTGCATGTCTCCGGACGCTTTTCCGCGGAGCGCCATTTCCTCTCGGTGGTCCTG
CCGCTGGCCTGGCACCCGCGCAACCGCAATGCTCTCATCGTCTGCGACCTCTGCGCCGATCCCGCGCCGCTG
CTGGAGTTGTCGGCCGAGGACTTGCGCAGGCGCCTGTATACCCGTCGCGACGAACTGGCCGAGGGCGAGTTG
CCGGTGCCGCTGAAGCAGATCCAGGTCAACCGTTGCCCGGTGGTGGCGCCGCTGTCGGTATTGCGCGGCGAG
GATCGCCAGCGAACCGGCATCGAACTCGAGGAGTGCCAGCGAAAAGCCGAGTTGTTGCGCCAGCATCAAACC
GTCTGGGCGGACAAACTGACAGCGCTATATGGCGAAGAAAGTTTCTCCGCCAGCGACGACCCCGAGCAACAG
TTGTATGACGGATTTATTGGCGATCGGGATCGACGCCTTTGTGAACAGCTGCGCCTTGCCGAACCGGAGCAA
TTGGCCAAAGAACAATGGCCCTTCGACGATGCCCGCTTGCAGGAGTTGTTCTTCCGCTATCGTGCGCGAAAT
TTCCCGGAAACTTTAAATGTGGCCGAGCGCCAACAATGGGAAAGCTTCTGCCGCAATCGTTTGTCCCATGAA
GAATACGGCGCACCGAATACTTTGCCGGCCTTCGAGGCGGCGCTGGAGGCTTGTCGGCAAGAGCAGGGCGGC
ACATTGCCGGCGGTACTTGCGGCCTGGCGCGATTACGCCGCGGAACTGCGTCAACGCTATTCGCTGGAGACT
TGA
Translation:
MTVNASIFWYDYETTGIDPRRDRPLQIAGIRTDEALNEIGEPMNLYCRPSDDILPHPMACLITGITPQRLAE
RGLSEADFMTRVHAQLAQPATCVAGYNSLRFDDEVTRYSLYRNFFDPYAREWQGGNSRWDLIDMVRTAYALR
PEGIQWPQLDGRLSLKLEMLTAANGLEHGQAHDALSDVRATIALARLIRQRQPRLYDYLYQLRSKHKVLDQV
RLLQPLVHVSGRFSAERHFLSVVLPLAWHPRNRNALIVCDLCADPAPLLELSAEDLRRRLYTRRDELAEGEL
PVPLKQIQVNRCPVVAPLSVLRGEDRQRTGIELEECQRKAELLRQHQTVWADKLTALYGEESFSASDDPEQQ
LYDGFIGDRDRRLCEQLRLAEPEQLAKEQWPFDDARLQELFFRYRARNFPETLNVAERQQWESFCRNRLSHE
EYGAPNTLPAFEAALEACRQEQGGTLPAVLAAWRDYAAELRQRYSLET*
AnnotationID:832GeneID:823
AnnotatorUID: diggins
Modification Date/Time: 2005-04-04 11:11:19
Gene Name:sbcB
Confidence Code:2
GeneProduct:exodeoxyribonuclease I
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2925
Secondary Functional Category(ies):
EC Number:3.1.11.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66988.1|AE016327_3 (AE016779) exodeoxyribonuclease I [Pseudomonas putida KT2440]
          Length = 477

 Score =  703 bits (1815), Expect = 0.0
 Identities = 338/476 (71%), Positives = 397/476 (83%)

>gb|AAO57767.1| (AE016871) exodeoxyribonuclease I [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 476

 Score =  688 bits (1776), Expect = 0.0
 Identities = 328/473 (69%), Positives = 384/473 (81%)

>emb|CAD84582.1| (BX321858) exodeoxyribonuclease I [Nitrosomonas europaea ATCC
           19718]
          Length = 496

 Score =  455 bits (1170), Expect = e-127
 Identities = 229/455 (50%), Positives = 303/455 (66%), Gaps = 4/455 (0%)








 
Structural Features:
COG2925, SbcB, Exonuclease I [DNA replication, recombination, and repair]
CD-Length = 475 residues,  99.2% aligned
Score =  705 bits (1820), Expect = 0.0
Identities = 266/477 (55%), Positives = 323/477 (67%), Gaps = 10/477 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:1649




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18791




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36681




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:823_cdd.html


    		




 
URL:

















    ReferenceID:36803




  
Author/Investigator(s):
        Phillips GJ, Kushner SR.





  
Title:
        Determination of the nucleotide sequence for the exonuclease I structural gene (sbcB) of Escherichia coli K12.




  
PubMed:
        3539937


MedLine:
        




    
Source:
J Biol Chem. 1987 Jan 5;262(1):455-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3539937









           
Homologs By Global Alignment 

           

       



     
Gene ID:823
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1484
                           PA4316_tr
                           translation of PA4316
                           480
                           99.37
                           99.79
                           0
                           2518.0
     

     
     
54050
                           gb|AAG07704.1|AE004848_3
                           (AE004848) exodeoxyribonuclease I [Pseudomonas aeruginosa PAO1]
                           480
                           99.37
                           99.79
                           0
                           2518.0
     

     
     
54051
                           gb|AAN66988.1|AE016327_3
                           (AE016779) exodeoxyribonuclease I [Pseudomonas putida KT2440]
                           480
                           70.41
                           82.70
                           3
                           1813.0
     

     
     
54052
                           gb|AAO57767.1|
                           (AE016871) exodeoxyribonuclease I [Pseudomonas syringae pv. tomato str. DC3000]
                           480
                           68.33
                           80.20
                           4
                           1776.0
     

     
     
54063
                           gb|AAQ59004.1|
                           (AE016914) exodeoxyribonuclease I [Chromobacterium violaceum ATCC 12472]
                           491
                           49.28
                           63.34
                           30
                           1130.0
     

     






      

          
GC ORFID: 43825How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4316Glimmer Score: 

          
Start: 4272825Stop: 4271383

          
Length: 1443


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4316 translation of PA4316Homolog Bit Score 974.0

          
Other Homologs:  psyr_15may02_Scaffold12_revised_gene2099 (ORF: BLASTX 689.0), t_PA4316 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCGTGAACGCGAGTATTTTTTGGTACGACTACGAAACCACCGGCATCGACCCCCGCCGCGACCGGCCG 
TTGCAGATCGCCGGGATCCGCACGGACGAGGCGCTGAACGAGATCGGCGAGCCGATGAACCTGTATTGCCGT 
CCCAGCGACGATATCCTGCCCCACCCTATGGCTTGCCTGATCACCGGCATCACTCCCCAGCGGCTGGCCGAG 
CGGGGGCTGTCCGAGGCCGACTTCATGACCCGGGTACACGCCCAACTGGCGCAGCCGGCGACCTGCGTGGCC 
GGCTACAACTCCCTGCGCTTCGACGACGAAGTGACGCGCTACAGCCTGTACCGCAACTTCTTCGATCCCTAC 
GCACGCGAGTGGCAAGGCGGCAATAGCCGCTGGGACCTGATCGACATGGTCCGTACCGCCTATGCCCTGCGC 
CCGGAGGGCATCCAGTGGCCGCAGCTGGACGGCCGGCTGTCGCTGAAGCTGGAAATGCTCACCGCGGCGAAC 
GGCCTGGAGCATGGGCAGGCCCACGACGCGCTTTCCGATGTTCGCGCCACCATTGCCCTGGCCCGCCTGATC 
CGTCAGCGCCAGCCGCGCCTGTACGATTACCTCTACCAGTTGCGCAGTAAGCACAAGGTGCTCGACCAGGTG 
CGCCTGCTGCAGCCGCTGGTGCATGTCTCCGGACGCTTTTCCGCGGAGCGCCATTTCCTCTCGGTGGTCCTG 
CCGCTGGCCTGGCACCCGCGCAACCGCAATGCTCTCATCGTCTGCGACCTCTGCGCCGATCCCGCGCCGCTG 
CTGGAGTTGTCGGCCGAGGACTTGCGCAGGCGCCTGTATACCCGTCGCGACGAACTGGCCGAGGGCGAGTTG 
CCGGTGCCGCTGAAGCAGATCCAGGTCAACCGTTGCCCGGTGGTGGCGCCGCTGTCGGTATTGCGCGGCGAG 
GATCGCCAGCGAACCGGCATCGAACTCGAGGAGTGCCAGCGAAAAGCCGAGTTGTTGCGCCAGCATCAAACC 
GTCTGGGCGGACAAACTGACAGCGCTATATGGCGAAGAAAGTTTCTCCGCCAGCGACGACCCCGAGCAACAG 
TTGTATGACGGATTTATTGGCGATCGGGATCGACGCCTTTGTGAACAGCTGCGCCTTGCCGAACCGGAGCAA 
TTGGCCAAAGAACAATGGCCCTTCGACGATGCCCGCTTGCAGGAGTTGTTCTTCCGCTATCGTGCGCGAAAT 
TTCCCGGAAACTTTAAATGTGGCCGAGCGCCAACAATGGGAAAGCTTCTGCCGCAATCGTTTGTCCCATGAA 
GAATACGGCGCACCGAATACTTTGCCGGCCTTCGAGGCGGCGCTGGAGGCTTGTCGGCAAGAGCAGGGCGGC 
ACATTGCCGGCGGTACTTGCGGCCTGGCGCGATTACGCCGCGGAACTGCGTCAACGCTATTCGCTGGAGACT 
TGA