ViewGene
Locus Name:
GeneID:
Location:

GeneID:4644
TrivialName: PA14_14460
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_14460
PAO1 Ortholog Locus:PA3832
Sequence Length:429
Protein Length:142
Start: 1235362
Stop: 1234934
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07219.1|AE004800_8 (AE004800) DNA polymerase III, chi subunit [Pseudomonas aeruginosa PAO1]
Identities = 139/142 (97%), Positives = 140/142 (98%)
Sequence:
GTGACCCGGGTCGATTTCTACGTGATCCCCAGCGCCGATCCGTCGGCGCGCCTGCAGGTCGCCTGCCGCCTG
GCCGAGAAGGCCTGGCGGCAGGGCATGCGGGTCTACCTGCATTGCGCCGACGAGGCGCAGCGCAGCGAGTTG
GACGGCCGCCTGTGGAGCTTCCGCGGCGAGGCTTTCATTCCTCACAGCCTGGCCGAGGAAGACGCCGAGGCG
CCCGTCGCCCTGGGTCTGGGAGAGACCCCGGGGAACCATCGCGACCTGCTGATCAACCTGACCCTCGAAGCC
CCCGGCTTCGTCGCGAACTTTTCGCGGGTGGCCGAACTGGTGGTCGAGGAGCCGGCGATCCGCCAGGCGGCA
CGGGATAAATTCCGCTTCTACCGGGAGCAGGGCTATCCTCTACAGGATCATCGCCTGCCGCGTATCTGA
Translation:
MTRVDFYVIPSADPSARLQVACRLAEKAWRQGMRVYLHCADEAQRSELDGRLWSFRGEAFIPHSLAEEDAEA
PVALGLGETPGNHRDLLINLTLEAPGFVANFSRVAELVVEEPAIRQAARDKFRFYREQGYPLQDHRLPRI*
AnnotationID:4650GeneID:4644
AnnotatorUID: diggins
Modification Date/Time: 2005-04-24 21:09:31
Gene Name:holC
Confidence Code:2
GeneProduct:DNA polymerase holoenzyme chi 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:pfam04364,COG2927
Secondary Functional Category(ies):
EC Number:2.7.7.7
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAD04822.1| (AF054622) DNA polymerase holoenzyme chi subunit [Pseudomonas
           aeruginosa]
          Length = 142

 Score =  284 bits (726), Expect = 1e-76
 Identities = 139/142 (97%), Positives = 140/142 (98%)

>gb|AAO54795.1| (AE016860) DNA polymerase III, chi subunit [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 142

 Score =  204 bits (518), Expect = 1e-52






 
Structural Features:
pfam04364, DNA_pol3_chi, DNA polymerase III chi subunit, HolC.
CD-Length = 142 residues, 100.0% aligned
Score =  164 bits (416), Expect = 7e-42
Identities = 66/142 (46%), Positives = 86/142 (60%), Gaps = 3/142 (2%)

COG2927, HolC, DNA polymerase III, chi subunit 
[DNA replication, recombination, and repair]
CD-Length = 144 residues, 100.0% aligned
Score =  145 bits (367), Expect = 4e-36
Identities = 61/147 (41%), Positives = 78/147 (53%), Gaps = 8/147 (5%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15144




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26430




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31725




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4644_cdd.html


    		




 
URL:

















    ReferenceID:34318




  
Author/Investigator(s):
        Carter JR, Franden MA, Lippincott JA, McHenry CS.





  
Title:
        Identification, molecular cloning and characterization of the gene encoding the chi subunit of DNA polymerase III holoenzyme of Escherichia coli.




  
PubMed:
        8246893


MedLine:
        




    
Source:
Mol Gen Genet. 1993 Nov;241(3-4):399-408.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8246893

















    ReferenceID:34319




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





  
Title:
        DNA polymerase III accessory proteins. III. holC and holD encoding chi and psi.




  
PubMed:
        8389364


MedLine:
        




    
Source:
J Biol Chem. 1993 Jun 5;268(16):11773-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8389364









           
Homologs By Global Alignment 

           

       



     
Gene ID:4644
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7012
                           PA3832_tr
                           translation of PA3832
                           142
                           97.88
                           98.59
                           0
                           725.0
     

     
     
185696
                           gb|AAG07219.1|AE004800_8
                           (AE004800) DNA polymerase III, chi subunit [Pseudomonas aeruginosa PAO1]
                           142
                           97.18
                           98.59
                           0
                           722.0
     

     
     
185697
                           gb|AAD04822.1|
                           (AF054622) DNA polymerase holoenzyme chi subunit [Pseudomonas aeruginosa]
                           142
                           97.18
                           98.59
                           0
                           722.0
     

     
     
185698
                           gb|AAO54795.1|
                           (AE016860) DNA polymerase III, chi subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           142
                           65.49
                           78.87
                           0
                           514.0
     

     
     
185699
                           gb|AAN66604.1|AE016288_3
                           (AE016777) DNA polymerase III, chi subunit [Pseudomonas putida KT2440]
                           142
                           65.49
                           76.76
                           0
                           500.0
     

     






      

          
GC ORFID: 47646How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3832Glimmer Score: 

          
Start: 3718576Stop: 3719004

          
Length: 429


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3832 translation of PA3832Homolog Bit Score 283.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4971 (ORF: BLASTX 198.0), t_PA3832 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGACCCGGGTCGATTTCTACGTGATCCCCAGCGCCGATCCGTCGGCGCGCCTGCAGGTCGCCTGCCGCCTG 
GCCGAGAAGGCCTGGCGGCAGGGCATGCGGGTCTACCTGCATTGCGCCGACGAGGCGCAGCGCAGCGAGTTG 
GACGGCCGCCTGTGGAGCTTCCGCGGCGAGGCTTTCATTCCTCACAGCCTGGCCGAGGAAGACGCCGAGGCG 
CCCGTCGCCCTGGGTCTGGGAGAGACCCCGGGGAACCATCGCGACCTGCTGATCAACCTGACCCTCGAAGCC 
CCCGGCTTCGTCGCGAACTTTTCGCGGGTGGCCGAACTGGTGGTCGAGGAGCCGGCGATCCGCCAGGCGGCA 
CGGGATAAATTCCGCTTCTACCGGGAGCAGGGCTATCCTCTACAGGATCATCGCCTGCCGCGTATCTGA