ViewGene
Locus Name:
GeneID:
Location:

GeneID:1852
TrivialName: PA14_00020
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_00020
PAO1 Ortholog Locus:PA0002
Sequence Length:1104
Protein Length:367
Start: 2056
Stop: 3159
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03392.1|AE004440_2 (AE004440) DNA polymerase III, beta chain [Pseudomonas aeruginosa PAO1]
Identities = 367/367 (100%), Positives = 367/367 (100%)
Sequence:
ATGCATTTCACCATTCAACGCGAAGCCCTGTTGAAACCGCTGCAACTGGTCGCCGGCGTCGTGGAACGCCGC
CAGACATTGCCGGTTCTCTCCAACGTCCTGCTGGTGGTCGAAGGCCAGCAACTGTCGCTGACCGGCACCGAC
CTCGAGGTCGAGCTGGTTGGTCGCGTGGTACTGGAAGATGCCGCCGAACCCGGCGAGATCACCGTACCGGCG
CGCAAGCTGATGGACATCTGCAAGAGCCTGCCGAACGACGTGCTGATCGACATCCGTGTCGAAGAGCAGAAA
CTTCTGGTGAAGGCCGGGCGTAGCCGCTTCACCCTGTCCACCCTGCCGGCCAACGATTTCCCCACCGTAGAG
GAAGGTCCCGGCTCGCTGAACTTCAGCATTGCCCAGAGCAAGCTGCGTCGCCTGATCGACCGCACCAGCTTC
GCCATGGCCCAGCAGGACGTGCGTTACTACCTCAACGGCATGCTGCTGGAAGTGAACGGCGGCACCCTGCGC
TCCGTCGCCACCGACGGCCACCGACTGGCCATGTGCTCGCTGGATGCGCAGATCCCGTCGCAGGACCGCCAC
CAGGTGATCGTGCCGCGCAAAGGCATCCTCGAACTGGCTCGTCTGCTCACCGAGCAGGACGGCGAAGTCGGC
ATCGTCCTGGGCCAGCACCATATCCGTGCCACCACTGGCGAATTCACCTTCACTTCGAAGCTGGTGGACGGC
AAGTTCCCGGACTACGAACGCGTACTGCCGCGCGGTGGCGACAAGCTGGTGGTCGGCGACCGCCAGCAACTG
CGCGAAGCCTTCAGCCGTACCGCGATCCTCTCCAACGAAAAGTACCGCGGCATTCGCCTGCAGCTTTCCAAC
GGTTTGCTGAAAATCCAGGCGAACAACCCGGAGCAGGAGGAGGCCGAGGAAGAAGTGCAGGTCGAGTACAAC
GGCGGCAACCTGGAGATCGGCTTCAACGTCAGTTACCTGCTCGACGTGCTGGGTGTGATCGGTACCGAGCAG
GTCCGCTTCATCCTTTCCGATTCCAACAGCAGCGCCCTGGTCCACGAGGCCGACAATGACGATTCTGCCTAT
GTCGTCATGCCGATGCGCCTCTAA
Translation:
MHFTIQREALLKPLQLVAGVVERRQTLPVLSNVLLVVEGQQLSLTGTDLEVELVGRVVLEDAAEPGEITVPA
RKLMDICKSLPNDVLIDIRVEEQKLLVKAGRSRFTLSTLPANDFPTVEEGPGSLNFSIAQSKLRRLIDRTSF
AMAQQDVRYYLNGMLLEVNGGTLRSVATDGHRLAMCSLDAQIPSQDRHQVIVPRKGILELARLLTEQDGEVG
IVLGQHHIRATTGEFTFTSKLVDGKFPDYERVLPRGGDKLVVGDRQQLREAFSRTAILSNEKYRGIRLQLSN
GLLKIQANNPEQEEAEEEVQVEYNGGNLEIGFNVSYLLDVLGVIGTEQVRFILSDSNSSALVHEADNDDSAY
VVMPMRL*
AnnotationID:1861GeneID:1852
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 09:09:55
Gene Name:dnaN
Confidence Code:2
GeneProduct:DNA polymerase III, beta chain
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:cd00140,smart00480,COG0592
Secondary Functional Category(ies):
EC Number:2.7.7.7
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53559.1| (AE016856) DNA polymerase III, beta subunit [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 367

 Score =  630 bits (1625), Expect = e-180
 Identities = 323/367 (88%), Positives = 343/367 (93%)

>gb|AAN65645.1|AE016191_2 (AE016774) DNA polymerase III, beta subunit [Pseudomonas putida
           KT2440]
          Length = 367

 Score =  621 bits (1601), Expect = e-177
 Identities = 319/367 (86%), Positives = 342/367 (93%)

>gb|AAN53096.1|AE015452_9 (AE015452) DNA polymerase III, beta subunit [Shewanella oneidensis
           MR-1]
          Length = 366

 Score =  414 bits (1063), Expect = e-115
 Identities = 211/369 (57%), Positives = 271/369 (73%), Gaps = 5/369 (1%)






 
Structural Features:
cd00140, POL3Bc, DNA polymerase III beta subunit
CD-Length = 364 residues, 100.0% aligned
Score =  417 bits (1074), Expect = 1e-117
Identities = 168/366 (45%), Positives = 237/366 (64%), Gaps = 2/366 (0%)

smart00480, POL3Bc, DNA polymerase III beta subunit
CD-Length = 346 residues, 100.0% aligned
Score =  385 bits (991), Expect = 4e-108
Identities = 146/347 (42%), Positives = 224/347 (64%), Gaps = 1/347 (0%)

COG0592, DnaN, DNA polymerase sliding clamp subunit (PCNA homolog) 
[DNA replication, recombination, and repair]
CD-Length = 364 residues, 100.0% aligned
Score =  349 bits (897), Expect = 3e-97
Identities = 169/368 (45%), Positives = 235/368 (63%), Gaps = 5/368 (1%)







   
Genomic Context:






   
Comment:


















    ReferenceID:3707




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20854




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33367




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1852_cdd.html


    		




 
URL:

















    ReferenceID:35538




  
Author/Investigator(s):
        Old IG, Margarita D, Saint Girons I.





  
Title:
        Nucleotide sequence of the Borrelia burgdorferi dnaN gene encoding the beta subunit of DNA polymerase III.




  
PubMed:
        8341609


MedLine:
        




    
Source:
Nucleic Acids Res. 1993 Jul 11;21(14):3323.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8341609

















    ReferenceID:35543




  
Author/Investigator(s):
        Clark MA, Baumann L, Baumann P.





  
Title:
        Sequence analysis of a 34.7-kb DNA segment from the genome of Buchnera aphidicola (endosymbiont of aphids) containing groEL, dnaA, the atp operon, gidA, and rho.




  
PubMed:
        9516544


MedLine:
        




    
Source:
Curr Microbiol. 1998 Mar;36(3):158-63.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9516544

















    ReferenceID:35549




  
Author/Investigator(s):
        Fsihi H, De Rossi E, Salazar L, Cantoni R, Labo M, Riccardi G, Takiff HE, Eiglmeier K, Bergh S, Cole ST.





  
Title:
        Gene arrangement and organization in a approximately 76 kb fragment encompassing the oriC region of the chromosome of Mycobacterium leprae.




  
PubMed:
        8969512


MedLine:
        




    
Source:
Microbiology. 1996 Nov;142 ( Pt 11):3147-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8969512









           
Homologs By Global Alignment 

           

       



     
Gene ID:1852
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3254
                           PA0002_tr
                           translation of PA0002
                           367
                           99.99
                           99.99
                           0
                           1830.0
     

     
     
100923
                           gb|AAG03392.1|AE004440_2
                           (AE004440) DNA polymerase III, beta chain [Pseudomonas aeruginosa PAO1]
                           367
                           99.99
                           99.99
                           0
                           1830.0
     

     
     
100924
                           gb|AAO53559.1|
                           (AE016856) DNA polymerase III, beta subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           367
                           88.01
                           93.46
                           0
                           1625.0
     

     
     
100925
                           gb|AAN65645.1|AE016191_2
                           (AE016774) DNA polymerase III, beta subunit [Pseudomonas putida KT2440]
                           367
                           86.92
                           93.18
                           0
                           1601.0
     

     
     
100926
                           emb|CAA32894.1|
                           (X14791) unnamed protein product [Pseudomonas putida]
                           367
                           86.92
                           93.18
                           0
                           1601.0
     

     






      

          
GC ORFID: 44854How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0002Glimmer Score: 

          
Start: 5803393Stop: 5804496

          
Length: 1104


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA0002 translation of PA0002Homolog Bit Score 709.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene2967 (ORF: BLASTX 631.0), t_PA0002 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCATTTCACCATTCAACGCGAAGCCCTGTTGAAACCGCTGCAACTGGTCGCCGGCGTCGTGGAACGCCGC 
CAGACATTGCCGGTTCTCTCCAACGTCCTGCTGGTGGTCGAAGGCCAGCAACTGTCGCTGACCGGCACCGAC 
CTCGAGGTCGAGCTGGTTGGTCGCGTGGTACTGGAAGATGCCGCCGAACCCGGCGAGATCACCGTACCGGCG 
CGCAAGCTGATGGACATCTGCAAGAGCCTGCCGAACGACGTGCTGATCGACATCCGTGTCGAAGAGCAGAAA 
CTTCTGGTGAAGGCCGGGCGTAGCCGCTTCACCCTGTCCACCCTGCCGGCCAACGATTTCCCCACCGTAGAG 
GAAGGTCCCGGCTCGCTGAACTTCAGCATTGCCCAGAGCAAGCTGCGTCGCCTGATCGACCGCACCAGCTTC 
GCCATGGCCCAGCAGGACGTGCGTTACTACCTCAACGGCATGCTGCTGGAAGTGAACGGCGGCACCCTGCGC 
TCCGTCGCCACCGACGGCCACCGACTGGCCATGTGCTCGCTGGATGCGCAGATCCCGTCGCAGGACCGCCAC 
CAGGTGATCGTGCCGCGCAAAGGCATCCTCGAACTGGCTCGTCTGCTCACCGAGCAGGACGGCGAAGTCGGC 
ATCGTCCTGGGCCAGCACCATATCCGTGCCACCACTGGCGAATTCACCTTCACTTCGAAGCTGGTGGACGGC 
AAGTTCCCGGACTACGAACGCGTACTGCCGCGCGGTGGCGACAAGCTGGTGGTCGGCGACCGCCAGCAACTG 
CGCGAAGCCTTCAGCCGTACCGCGATCCTCTCCAACGAAAAGTACCGCGGCATTCGCCTGCAGCTTTCCAAC 
GGTTTGCTGAAAATCCAGGCGAACAACCCGGAGCAGGAGGAGGCCGAGGAAGAAGTGCAGGTCGAGTACAAC 
GGCGGCAACCTGGAGATCGGCTTCAACGTCAGTTACCTGCTCGACGTGCTGGGTGTGATCGGTACCGAGCAG 
GTCCGCTTCATCCTTTCCGATTCCAACAGCAGCGCCCTGGTCCACGAGGCCGACAATGACGATTCTGCCTAT 
GTCGTCATGCCGATGCGCCTCTAA