ViewGene
Locus Name:
GeneID:
Location:

GeneID:276
TrivialName: PA14_55660
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_55660
PAO1 Ortholog Locus:PA4283
Sequence Length:2166
Protein Length:721
Start: 4964910
Stop: 4962745
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07671.1|AE004844_3 (AE004844) exodeoxyribonuclease V alpha chain [Pseudomonas aeruginosa PAO1]
Identities = 716/721 (99%), Positives = 718/721 (99%)
Sequence:
ATGAATCCGACCCTCAAGCAACTGGCCGGCGAAGTCCGCGATGGCCGCGACGACCAGGTAGCGCAACCGCTG
GCGGTACGCCACGACCTGCTGCGCCAGCTCGACCTGTGGGTGGCGCGCGGCTGGCTACGGGCGCTGGACCGG
GCGTTCGTCGCCTTCCTCGTCGAGCTGCAGCCGCAGGCCGATCCCCGGGTGCTGCTGGCGGCGGCGCTGACC
AGCCACCAACTGGGCCACGGGCACGTCTGCCTGGACCTGGAGGCGACCCTCGGTGCGCCTGACGCGGCACTG
TCGCTGCCGCCGGAAGGCGACGAAGGCCGCGATGTGCTGCTGCCGTCGCAACTGCTGCGCGGCGTGCGCCTC
GACGCCTGGCGCGAGGCCCTGGCGGCGTCATCGCTGGTGGAGGTGGTCGACGAGCGCCCAGGCGATCCCGAG
CCGAGCGAGACGGCGACCTCGCCGCTGGTGCTTTGCGCTCAGCGTCTCTACCTGCGTCGCTATTGGCGGCAC
GAGCTGGAGATCGCCCTGGCCCTGCGCGAGCGCCTGGGTCGGCAGGCGCCCCTGGCCGCAGACCTGGCGCCG
CGCCTGGCCGCGCTGTTCGCGCAGGCGCCGACGGAAGACGGCCAGCGCGTCACCGACTGGCAGAAGCTGGCC
TGTGCCCTGGCGGCCCGCGGCTATTTCAGCCTGATCACCGGCGGTCCCGGTACCGGCAAGACCACCACCGTG
GTGCGCCTGCTCGGTCTGCTCCAGGCACCGGCGGTAGCCGCCGGCCAGCCGCTGCGCATCCGCCTCGCGGCA
CCCACCGGCAAGGCCGCGGCGCGTCTCTCCGAGTCCATCGGCCAGCAGGTCCGGGCCCTGCCGCTGGCGGAA
GACGTGTTGCAGGCGATCCCCGCCGAGGTCACTACCCTGCACCGTCTGCTCGGCAGCCGTCCGGATACCCGG
CACTTCCGCCACCACCGGGACAACCCTTTGGCGCTGGACGTGCTGGTGGTGGACGAGGCCTCGATGATCGAC
CTGGAAATGATGGCCAGCCTGCTCGATGCGCTACCGCCGCAGGCGCGCCTGATCCTGCTCGGCGACAAGGAC
CAGTTGGCCTCGGTAGAGGCCGGCGCGGTGCTCGGCGATCTCTGCCGGGATGCCGAGGAGGGCTGGTACAGC
GCCGAGACCCGCGCCTGGTTGCAGCGGGTCAGCGGCGAAACCTGGCAGGGCTTGCGCGAAGGTTCGGCGCAG
GCGCATCCGCTGGCGCAACAGACCGTCATGCTGCGGCATTCCCGGCGCTTCGGCGCGAGCAGCGGGATCGGG
CGCCTGGCGCGGCTGGTCAACCGGCAACAGGCCGGCGACGCGCGCGCGCTGCTGGACAGTCCGCCCGCCGAC
CTCTTCGACCTGCGCCTGCGCGGGGAGCGCGATGCAGCCTTCGCCCGGCTGTTCGTCGACGGTCATCCGCAG
GCGCCGGGCACGCCGTACGGCTACCGGCACTACCTGCAACGCCTGGCCGAGGGCCGCCCGGCCGCCGGACTG
GCGCTGGAGGATGGCGCCTGGGAGCGCTGGGCGCAGTCGGTACTGACGGCTTTCGACGCCTTCCGCCTGCTC
TGCGCGCTGCGCCGCGGCCCATGGGGCGTGGAAGGACTGAACCAGCGGGTGGCGGCGGAACTGCTGCGCCTT
GGCCTGATCGAGGCCGATCACGGCTGGTACGAGGGGCGGCCGGTACTGGTGACGCGCAACGACTACAGCCTG
GGGCTGATGAACGGCGATATCGGCATCGCCCTGCGCCTGCCCGAGCGCAACGATGACGGCAGCCTGCGCTTC
GCGCTGCGCGTGGCCTTCCCGCGCAACGACGGTAGCGGCGGCGTGCGCTTCGTCCTGCCGAGCCGCCTGGTC
GAGGTGGACACCGTGTTCGCCATGACCGTGCACAAGTCGCAGGGCTCGGAGTTCGCCCATACCGCGCTGGTC
CTGCCGGACGCGCTGAACCCGGTGCTGACCAAGGAGCTGGTGTACACCGGTATCACCCGCGCCCGCGACTGG
TTCAGCCTGGTGGAAAGCCTGCCCGGGGTGTTCGAGGAAGCAGTGCGGCGCAAGGTGCGCCGGCTCAGCGGG
CTGATGCTGCATCTGCGGCCGGAAAGGGAAGAGCAGCCGCCGCATGCTCCGGGTGAACAGACCGAGCTGCCG
TTCTGA
Translation:
MNPTLKQLAGEVRDGRDDQVAQPLAVRHDLLRQLDLWVARGWLRALDRAFVAFLVELQPQADPRVLLAAALT
SHQLGHGHVCLDLEATLGAPDAALSLPPEGDEGRDVLLPSQLLRGVRLDAWREALAASSLVEVVDERPGDPE
PSETATSPLVLCAQRLYLRRYWRHELEIALALRERLGRQAPLAADLAPRLAALFAQAPTEDGQRVTDWQKLA
CALAARGYFSLITGGPGTGKTTTVVRLLGLLQAPAVAAGQPLRIRLAAPTGKAAARLSESIGQQVRALPLAE
DVLQAIPAEVTTLHRLLGSRPDTRHFRHHRDNPLALDVLVVDEASMIDLEMMASLLDALPPQARLILLGDKD
QLASVEAGAVLGDLCRDAEEGWYSAETRAWLQRVSGETWQGLREGSAQAHPLAQQTVMLRHSRRFGASSGIG
RLARLVNRQQAGDARALLDSPPADLFDLRLRGERDAAFARLFVDGHPQAPGTPYGYRHYLQRLAEGRPAAGL
ALEDGAWERWAQSVLTAFDAFRLLCALRRGPWGVEGLNQRVAAELLRLGLIEADHGWYEGRPVLVTRNDYSL
GLMNGDIGIALRLPERNDDGSLRFALRVAFPRNDGSGGVRFVLPSRLVEVDTVFAMTVHKSQGSEFAHTALV
LPDALNPVLTKELVYTGITRARDWFSLVESLPGVFEEAVRRKVRRLSGLMLHLRPEREEQPPHAPGEQTELP
F*
AnnotationID:286GeneID:276
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 19:07:49
Gene Name:recD
Confidence Code:2
GeneProduct:exodeoxyribonuclease V alpha 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:COG0507
Secondary Functional Category(ies):
EC Number:3.1.11.5
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54320.1| (AE016858) exodeoxyribonuclease V, alpha subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 697

 Score =  874 bits (2257), Expect = 0.0
 Identities = 467/683 (68%), Positives = 527/683 (77%), Gaps = 12/683 (1%)

>gb|AAN70245.1|AE016664_1 (AE016791) exodeoxyribonuclease V, alpha subunit [Pseudomonas
           putida KT2440]
          Length = 691

 Score =  849 bits (2193), Expect = 0.0
 Identities = 463/682 (67%), Positives = 522/682 (76%), Gaps = 20/682 (2%)








 
Structural Features:
COG0507, RecD, ATP-dependent exoDNAse (exonuclease V), alpha subunit 
- helicase superfamily I member 
[DNA replication, recombination, and repair]
CD-Length = 696 residues,  96.6% aligned
Score =  384 bits (988), Expect = 2e-107
Identities = 195/714 (27%), Positives = 270/714 (37%), Gaps = 61/714 (8%)







   
Genomic Context:






   
Comment:


















    ReferenceID:555




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17697




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36646




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:276_cddd.html


    		




 
URL:

















    ReferenceID:36793




  
Author/Investigator(s):
        Finch PW, Storey A, Brown K, Hickson ID, Emmerson PT.





  
Title:
        Complete nucleotide sequence of recD, the structural gene for the alpha subunit of Exonuclease V of Escherichia coli.




  
PubMed:
        3537961


MedLine:
        




    
Source:
Nucleic Acids Res. 1986 Nov 11;14(21):8583-94.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3537961









           
Homologs By Global Alignment 

           

       



     
Gene ID:276
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
457
                           PA4283_tr
                           translation of PA4283
                           721
                           99.30
                           99.58
                           0
                           3678.0
     

     
     
24264
                           gb|AAG07671.1|AE004844_3
                           (AE004844) exodeoxyribonuclease V alpha chain [Pseudomonas aeruginosa PAO1]
                           721
                           99.30
                           99.58
                           0
                           3678.0
     

     
     
24265
                           gb|AAO54320.1|
                           (AE016858) exodeoxyribonuclease V, alpha subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           726
                           64.87
                           73.55
                           34
                           2268.0
     

     
     
24266
                           gb|AAN70245.1|AE016664_1
                           (AE016791) exodeoxyribonuclease V, alpha subunit [Pseudomonas putida KT2440]
                           737
                           63.36
                           71.23
                           62
                           2207.0
     

     
     
24267
                           gb|AAL79573.1|
                           (AY078390) exonuclease V alpha subunit RecD [Pseudomonas syringae]
                           731
                           63.33
                           72.91
                           47
                           2192.0
     

     






      

          
GC ORFID: 43278How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4283Glimmer Score: 

          
Start: 4228586Stop: 4226421

          
Length: 2166


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4283 translation of PA4283Homolog Bit Score 1421.0

          
Other Homologs:  t_PA4283 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATCCGACCCTCAAGCAACTGGCCGGCGAAGTCCGCGATGGCCGCGACGACCAGGTAGCGCAACCGCTG 
GCGGTACGCCACGACCTGCTGCGCCAGCTCGACCTGTGGGTGGCGCGCGGCTGGCTACGGGCGCTGGACCGG 
GCGTTCGTCGCCTTCCTCGTCGAGCTGCAGCCGCAGGCCGATCCCCGGGTGCTGCTGGCGGCGGCGCTGACC 
AGCCACCAACTGGGCCACGGGCACGTCTGCCTGGACCTGGAGGCGACCCTCGGTGCGCCTGACGCGGCACTG 
TCGCTGCCGCCGGAAGGCGACGAAGGCCGCGATGTGCTGCTGCCGTCGCAACTGCTGCGCGGCGTGCGCCTC 
GACGCCTGGCGCGAGGCCCTGGCGGCGTCATCGCTGGTGGAGGTGGTCGACGAGCGCCCAGGCGATCCCGAG 
CCGAGCGAGACGGCGACCTCGCCGCTGGTGCTTTGCGCTCAGCGTCTCTACCTGCGTCGCTATTGGCGGCAC 
GAGCTGGAGATCGCCCTGGCCCTGCGCGAGCGCCTGGGTCGGCAGGCGCCCCTGGCCGCAGACCTGGCGCCG 
CGCCTGGCCGCGCTGTTCGCGCAGGCGCCGACGGAAGACGGCCAGCGCGTCACCGACTGGCAGAAGCTGGCC 
TGTGCCCTGGCGGCCCGCGGCTATTTCAGCCTGATCACCGGCGGTCCCGGTACCGGCAAGACCACCACCGTG 
GTGCGCCTGCTCGGTCTGCTCCAGGCACCGGCGGTAGCCGCCGGCCAGCCGCTGCGCATCCGCCTCGCGGCA 
CCCACCGGCAAGGCCGCGGCGCGTCTCTCCGAGTCCATCGGCCAGCAGGTCCGGGCCCTGCCGCTGGCGGAA 
GACGTGTTGCAGGCGATCCCCGCCGAGGTCACTACCCTGCACCGTCTGCTCGGCAGCCGTCCGGATACCCGG 
CACTTCCGCCACCACCGGGACAACCCTTTGGCGCTGGACGTGCTGGTGGTGGACGAGGCCTCGATGATCGAC 
CTGGAAATGATGGCCAGCCTGCTCGATGCGCTACCGCCGCAGGCGCGCCTGATCCTGCTCGGCGACAAGGAC 
CAGTTGGCCTCGGTAGAGGCCGGCGCGGTGCTCGGCGATCTCTGCCGGGATGCCGAGGAGGGCTGGTACAGC 
GCCGAGACCCGCGCCTGGTTGCAGCGGGTCAGCGGCGAAACCTGGCAGGGCTTGCGCGAAGGTTCGGCGCAG 
GCGCATCCGCTGGCGCAACAGACCGTCATGCTGCGGCATTCCCGGCGCTTCGGCGCGAGCAGCGGGATCGGG 
CGCCTGGCGCGGCTGGTCAACCGGCAACAGGCCGGCGACGCGCGCGCGCTGCTGGACAGTCCGCCCGCCGAC 
CTCTTCGACCTGCGCCTGCGCGGGGAGCGCGATGCAGCCTTCGCCCGGCTGTTCGTCGACGGTCATCCGCAG 
GCGCCGGGCACGCCGTACGGCTACCGGCACTACCTGCAACGCCTGGCCGAGGGCCGCCCGGCCGCCGGACTG 
GCGCTGGAGGATGGCGCCTGGGAGCGCTGGGCGCAGTCGGTACTGACGGCTTTCGACGCCTTCCGCCTGCTC 
TGCGCGCTGCGCCGCGGCCCATGGGGCGTGGAAGGACTGAACCAGCGGGTGGCGGCGGAACTGCTGCGCCTT 
GGCCTGATCGAGGCCGATCACGGCTGGTACGAGGGGCGGCCGGTACTGGTGACGCGCAACGACTACAGCCTG 
GGGCTGATGAACGGCGATATCGGCATCGCCCTGCGCCTGCCCGAGCGCAACGATGACGGCAGCCTGCGCTTC 
GCGCTGCGCGTGGCCTTCCCGCGCAACGACGGTAGCGGCGGCGTGCGCTTCGTCCTGCCGAGCCGCCTGGTC 
GAGGTGGACACCGTGTTCGCCATGACCGTGCACAAGTCGCAGGGCTCGGAGTTCGCCCATACCGCGCTGGTC 
CTGCCGGACGCGCTGAACCCGGTGCTGACCAAGGAGCTGGTGTACACCGGTATCACCCGCGCCCGCGACTGG 
TTCAGCCTGGTGGAAAGCCTGCCCGGGGTGTTCGAGGAAGCAGTGCGGCGCAAGGTGCGCCGGCTCAGCGGG 
CTGATGCTGCATCTGCGGCCGGAAAGGGAAGAGCAGCCGCCGCATGCTCCGGGTGAACAGACCGAGCTGCCG 
TTCTGA