ViewGene
Locus Name:
GeneID:
Location:

GeneID:3634
TrivialName: PA14_18880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_18880
PAO1 Ortholog Locus:PA3495
Sequence Length:639
Protein Length:212
Start: 1628502
Stop: 1627864
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06883.1|AE004770_8 (AE004770) endonuclease III [Pseudomonas aeruginosa PAO1]
Identities = 212/212 (100%), Positives = 212/212 (100%)
Sequence:
ATGAATGCCGCCAAGCGCGCGGAGATCTTCCGCCGACTGCACGAAGACAACCCCGAGCCAAGGACCGAACTG
GCCTACACCACCCCCTTCGAACTGCTCATCGCGGTGATCCTCTCCGCCCAGGCCACCGACGTCGGGGTGAAC
AAGGCCACCGCCCGCCTCTATCCGGTGGCCAACACCCCCGAGGCGATCCACGCCCTCGGCGTCGAGGGGCTG
TCGGAGTACATCAAGACCATCGGCCTCTACAACAGCAAGGCGAAGAACGTCATCGAAACCTGCCGCATCCTC
ATCGAAAAGCACGGCGGCCAGGTCCCCGACAACCGCGAGGACCTCGAAGCCCTCCCCGGGGTTGGCCGCAAG
ACCGCCAACGTGGTGCTCAATACCGCCTTCCGGCAACTGGCCATGGCGGTGGACACGCATATCTTCCGCGTC
GCCAACCGCACCGGCATAGCACCGGGAAAGAACGTTCTGGAAGTGGAGAAGAAACTGCTGAAGTTCGTGCCG
CGCGAGTACCTGCTCGATGCCCACCACTGGCTGATCCTGCATGGCCGCTACGTCTGCAAGGCGCGCAAGCCG
CAATGCGGAAGCTGTCGGATCGAGGACCTGTGCGAATACAAGCACAAGACTTCAGACGATTGA
Translation:
MNAAKRAEIFRRLHEDNPEPRTELAYTTPFELLIAVILSAQATDVGVNKATARLYPVANTPEAIHALGVEGL
SEYIKTIGLYNSKAKNVIETCRILIEKHGGQVPDNREDLEALPGVGRKTANVVLNTAFRQLAMAVDTHIFRV
ANRTGIAPGKNVLEVEKKLLKFVPREYLLDAHHWLILHGRYVCKARKPQCGSCRIEDLCEYKHKTSDD*
AnnotationID:3642GeneID:3634
AnnotatorUID: diggins
Modification Date/Time: 2005-04-19 13:01:59
Gene Name:nth
Confidence Code:2
GeneProduct:endonuclease III
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:cd00056,smart00478,pfam00730,COG0177
Secondary Functional Category(ies):
EC Number:4.2.99.18
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66717.1|AE016300_2 (AE016778) endonuclease III [Pseudomonas putida KT2440]
          Length = 212

 Score =  389 bits (1000), Expect = e-108
 Identities = 189/212 (89%), Positives = 202/212 (95%)

>emb|CAC91045.1| (AJ414151) endonuclease III [Yersinia pestis CO92]
          Length = 213

 Score =  316 bits (810), Expect = 5e-86
 Identities = 155/208 (74%), Positives = 175/208 (84%)

>gb|AAN80485.1|AE016761_60 (AE016761) Endonuclease III [Escherichia coli CFT073]
          Length = 211

 Score =  313 bits (801), Expect = 6e-85
 Identities = 153/208 (73%), Positives = 175/208 (84%)






 
Structural Features:
cd00056, ENDO3c, endonuclease III
CD-Length = 158 residues, 100.0% aligned
Score =  146 bits (370), Expect = 2e-36
Identities = 74/159 (46%), Positives = 95/159 (59%), Gaps = 6/159 (3%)

smart00478, ENDO3c, endonuclease III
CD-Length = 149 residues, 100.0% aligned
Score =  156 bits (395), Expect = 2e-39
Identities = 72/149 (48%), Positives = 94/149 (63%), Gaps = 1/149 (0%)

pfam00730, HhH-GPD, HhH-GPD superfamily base excision DNA repair protein.
CD-Length = 145 residues, 100.0% aligned
Score =  111 bits (279), Expect = 6e-26
Identities = 61/145 (42%), Positives = 77/145 (53%), Gaps = 9/145 (6%)

COG0177, Nth, Predicted EndoIII-related endonuclease 
[DNA replication, recombination, and repair]
CD-Length = 211 residues, 100.0% aligned
Score =  310 bits (795), Expect = 1e-85
Identities = 123/211 (58%), Positives = 148/211 (70%)






   
Genomic Context:






   
Comment:


















    ReferenceID:7271




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24413




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34109




  
Author/Investigator(s):
        Asahara H, Wistort PM, Bank JF, Bakerian RH, Cunningham RP.





  
Title:
        Purification and characterization of Escherichia coli endonuclease III from the cloned nth gene.




  
PubMed:
        2669955


MedLine:
        




    
Source:
Biochemistry. 1989 May 16;28(10):4444-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2669955

















    ReferenceID:34110




  
Author/Investigator(s):
        Weiss B, Cunningham RP.





  
Title:
        Genetic mapping of nth, a gene affecting endonuclease III (thymine glycol-DNA glycosylase) in Escherichia coli K-12.




  
PubMed:
        3886628


MedLine:
        




    
Source:
J Bacteriol. 1985 May;162(2):607-10.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3886628

















    ReferenceID:34111




  
Author/Investigator(s):
        Gifford CM, Wallace SS.





  
Title:
        The genes encoding endonuclease VIII and endonuclease III in Escherichia coli are transcribed as the terminal genes in operons.




  
PubMed:
        10637328


MedLine:
        




    
Source:
Nucleic Acids Res. 2000 Feb 1;28(3):762-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10637328









           
Homologs By Global Alignment 

           

       



     
Gene ID:3634
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5823
                           PA3495_tr
                           translation of PA3495
                           212
                           99.99
                           99.99
                           0
                           1103.0
     

     
     
162486
                           gb|AAG06883.1|AE004770_8
                           (AE004770) endonuclease III [Pseudomonas aeruginosa PAO1]
                           212
                           99.99
                           99.99
                           0
                           1103.0
     

     
     
162487
                           gb|AAN66717.1|AE016300_2
                           (AE016778) endonuclease III [Pseudomonas putida KT2440]
                           212
                           89.15
                           95.28
                           0
                           1000.0
     

     
     
162488
                           gb|AAO57605.1|
                           (AE016870) endonuclease III [Pseudomonas syringae pv. tomato str. DC3000]
                           212
                           87.73
                           95.75
                           0
                           992.0
     

     
     
162489
                           gb|AAQ60957.1|
                           (AE016921) endonuclease III [Chromobacterium violaceum ATCC 12472]
                           212
                           75.94
                           83.49
                           2
                           827.0
     

     






      

          
GC ORFID: 46636How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3495Glimmer Score: 

          
Start: 3325432Stop: 3326070

          
Length: 639


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3495 translation of PA3495Homolog Bit Score 429.0

          
Other Homologs:  psyr_15may02_Scaffold5_revised_gene6112 (ORF: BLASTX 384.0), t_PA3495 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATGCCGCCAAGCGCGCGGAGATCTTCCGCCGACTGCACGAAGACAACCCCGAGCCAAGGACCGAACTG 
GCCTACACCACCCCCTTCGAACTGCTCATCGCGGTGATCCTCTCCGCCCAGGCCACCGACGTCGGGGTGAAC 
AAGGCCACCGCCCGCCTCTATCCGGTGGCCAACACCCCCGAGGCGATCCACGCCCTCGGCGTCGAGGGGCTG 
TCGGAGTACATCAAGACCATCGGCCTCTACAACAGCAAGGCGAAGAACGTCATCGAAACCTGCCGCATCCTC 
ATCGAAAAGCACGGCGGCCAGGTCCCCGACAACCGCGAGGACCTCGAAGCCCTCCCCGGGGTTGGCCGCAAG 
ACCGCCAACGTGGTGCTCAATACCGCCTTCCGGCAACTGGCCATGGCGGTGGACACGCATATCTTCCGCGTC 
GCCAACCGCACCGGCATAGCACCGGGAAAGAACGTTCTGGAAGTGGAGAAGAAACTGCTGAAGTTCGTGCCG 
CGCGAGTACCTGCTCGATGCCCACCACTGGCTGATCCTGCATGGCCGCTACGTCTGCAAGGCGCGCAAGCCG 
CAATGCGGAAGCTGTCGGATCGAGGACCTGTGCGAATACAAGCACAAGACTTCAGACGATTGA