ViewGene
Locus Name:
GeneID:
Location:

GeneID:2120
TrivialName: PA14_25760
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_25760
PAO1 Ortholog Locus:PA2961
Sequence Length:987
Protein Length:328
Start: 2248294
Stop: 2249280
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06349.1|AE004722_5 (AE004722) DNA polymerase III, delta prime subunit [Pseudomonas aeruginosa PAO1]
Identities = 326/328 (99%), Positives = 326/328 (99%)
Sequence:
ATGGCTGATATCTATCCCTGGCAGCAGGCGCTCTGGAGCCAACTGGGCGGCCGCGCCCAGCACGCCCACGCC
TATCTGCTCTACGGTCCCGTCGGGATCGGCAAGCGCGCCCTGGCCGAGCATTGGGCCGCCCAGCTGCTCTGC
CAGCGGCCCGCCGCCGCTGGCGCATGCGGCGAGTGCAAGGCCTGCCAGTTGCTGGCCGCCGGTACCCATCCG
GACTACTTCGTGCTGGAGCCGGAGGAAGCGGAGAAACCGATCCGGGTCGACCAGGTCCGCGACCTGGTTGGC
TTCGTGGTGCAGACCGCGCAACTGGGCGGGCGCAAGGTCGTGTTGCTCGAGCCCGCCGAGGCGATGAACGTG
AATGCCGCCAACGCCCTGTTGAAAAGCCTCGAAGAGCCCTCGGGCGATACCGTGCTGCTGCTGATCAGCCAC
CAGCCCAGCCGCCTGTTGCCGACCATCAAGAGCCGCTGCGTGCAGCAGGCCTGCCCTTTGCCGGGTGCGGCG
GCGAGTCTGGAATGGCTGGCGCGGGCCCTGCCCGACGAGCCGGCCGAGGCCCTGGAGGAACTGTTGGCGCTT
TCCGGCGGCTCGCCGCTCACCGCCCAGCGCCTGCACGGCCAGGGTGTGCGCGAGCAGCGCGCGCAGGTGGTC
GAGGGGGTGAAGAAGCTGCTCAAGCAGCAGATCGCCGCCAGCCCACTGGCCGAAAGCTGGAACAGCGTGCCG
CTGCCATTGCTGTTCGACTGGTTCTGCGACTGGACGCTGGGCATCCTGCGCTACCAGTTGACCCGCGACGAG
GAGGGGCTGGGGCTGGCCGACATGCGCAAGGTGATCCAGTACCTGGGCGACAAGTCCGGGCAGGCCAAGGTG
CTGGCCATGCAGGACTGGCTGCTGCAACAGCGGCAGAAAGTGTTGAACAAGGCCAACCTCAACCGTGTCCTG
CTTCTCGAAGCCCTGCTGGTGCAGTGGGCAAGCCTGCCCGGGCCGGGCTAG
Translation:
MADIYPWQQALWSQLGGRAQHAHAYLLYGPVGIGKRALAEHWAAQLLCQRPAAAGACGECKACQLLAAGTHP
DYFVLEPEEAEKPIRVDQVRDLVGFVVQTAQLGGRKVVLLEPAEAMNVNAANALLKSLEEPSGDTVLLLISH
QPSRLLPTIKSRCVQQACPLPGAAASLEWLARALPDEPAEALEELLALSGGSPLTAQRLHGQGVREQRAQVV
EGVKKLLKQQIAASPLAESWNSVPLPLLFDWFCDWTLGILRYQLTRDEEGLGLADMRKVIQYLGDKSGQAKV
LAMQDWLLQQRQKVLNKANLNRVLLLEALLVQWASLPGPG*
AnnotationID:2128GeneID:2120
AnnotatorUID: diggins
Modification Date/Time: 2005-04-10 15:03:50
Gene Name:holB
Confidence Code:2
GeneProduct:DNA polymerase III, delta prime subunit
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:
Secondary Functional Category(ies):
EC Number:2.7.7.7
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57294.1| (AE016869) DNA polymerase III, delta prime subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 328

 Score =  496 bits (1278), Expect = e-140
 Identities = 244/326 (74%), Positives = 275/326 (84%)

>gb|AAN67581.1|AE016388_1 (AE016781) DNA polymerase III, delta prime subunit [Pseudomonas
           putida KT2440]
          Length = 328

 Score =  477 bits (1228), Expect = e-134
 Identities = 238/326 (73%), Positives = 267/326 (81%)








 
Structural Features:






   
Genomic Context:






   
Comment:


















    ReferenceID:4243




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21389




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36087




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2120_cdd.html


    		




 
URL:

















    ReferenceID:36431




  
Author/Investigator(s):
        Dong Z, Onrust R, Skangalis M, O'Donnell M.





  
Title:
        DNA polymerase III accessory proteins. I. holA and holB encoding delta and delta'.




  
PubMed:
        8505303


MedLine:
        




    
Source:
J Biol Chem. 1993 Jun 5;268(16):11758-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8505303

















    ReferenceID:36432




  
Author/Investigator(s):
        Carter JR, Franden MA, Aebersold R, McHenry CS.





  
Title:
        Identification, isolation, and characterization of the structural gene encoding the delta' subunit of Escherichia coli DNA polymerase III holoenzyme.




  
PubMed:
        8509334


MedLine:
        




    
Source:
J Bacteriol. 1993 Jun;175(12):3812-22.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8509334









           
Homologs By Global Alignment 

           

       



     
Gene ID:2120
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3629
                           PA2961_tr
                           translation of PA2961
                           328
                           99.39
                           99.39
                           0
                           1689.0
     

     
     
111879
                           gb|AAG06349.1|AE004722_5
                           (AE004722) DNA polymerase III, delta prime subunit [Pseudomonas aeruginosa PAO1]
                           328
                           99.39
                           99.39
                           0
                           1689.0
     

     
     
111880
                           gb|AAA93518.1|
                           (L42622) shows homology to delta subunit of DNA polymerase III [Pseudomonas aeruginosa]
                           328
                           88.41
                           89.02
                           2
                           1431.0
     

     
     
111881
                           gb|AAO57294.1|
                           (AE016869) DNA polymerase III, delta prime subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           328
                           74.39
                           83.84
                           0
                           1277.0
     

     
     
111882
                           gb|AAN67581.1|AE016388_1
                           (AE016781) DNA polymerase III, delta prime subunit [Pseudomonas putida KT2440]
                           328
                           72.56
                           81.40
                           0
                           1225.0
     

     






      

          
GC ORFID: 45122How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2961Glimmer Score: 

          
Start: 2705631Stop: 2704645

          
Length: 987


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA2961 translation of PA2961Homolog Bit Score 655.0

          
Other Homologs:  psyr_15may02_Scaffold16_revised_gene2614 (ORF: BLASTX 493.0), t_PA2961 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTGATATCTATCCCTGGCAGCAGGCGCTCTGGAGCCAACTGGGCGGCCGCGCCCAGCACGCCCACGCC 
TATCTGCTCTACGGTCCCGTCGGGATCGGCAAGCGCGCCCTGGCCGAGCATTGGGCCGCCCAGCTGCTCTGC 
CAGCGGCCCGCCGCCGCTGGCGCATGCGGCGAGTGCAAGGCCTGCCAGTTGCTGGCCGCCGGTACCCATCCG 
GACTACTTCGTGCTGGAGCCGGAGGAAGCGGAGAAACCGATCCGGGTCGACCAGGTCCGCGACCTGGTTGGC 
TTCGTGGTGCAGACCGCGCAACTGGGCGGGCGCAAGGTCGTGTTGCTCGAGCCCGCCGAGGCGATGAACGTG 
AATGCCGCCAACGCCCTGTTGAAAAGCCTCGAAGAGCCCTCGGGCGATACCGTGCTGCTGCTGATCAGCCAC 
CAGCCCAGCCGCCTGTTGCCGACCATCAAGAGCCGCTGCGTGCAGCAGGCCTGCCCTTTGCCGGGTGCGGCG 
GCGAGTCTGGAATGGCTGGCGCGGGCCCTGCCCGACGAGCCGGCCGAGGCCCTGGAGGAACTGTTGGCGCTT 
TCCGGCGGCTCGCCGCTCACCGCCCAGCGCCTGCACGGCCAGGGTGTGCGCGAGCAGCGCGCGCAGGTGGTC 
GAGGGGGTGAAGAAGCTGCTCAAGCAGCAGATCGCCGCCAGCCCACTGGCCGAAAGCTGGAACAGCGTGCCG 
CTGCCATTGCTGTTCGACTGGTTCTGCGACTGGACGCTGGGCATCCTGCGCTACCAGTTGACCCGCGACGAG 
GAGGGGCTGGGGCTGGCCGACATGCGCAAGGTGATCCAGTACCTGGGCGACAAGTCCGGGCAGGCCAAGGTG 
CTGGCCATGCAGGACTGGCTGCTGCAACAGCGGCAGAAAGTGTTGAACAAGGCCAACCTCAACCGTGTCCTG 
CTTCTCGAAGCCCTGCTGGTGCAGTGGGCAAGCCTGCCCGGGCCGGGCTAG