ViewGene
Locus Name:
GeneID:
Location:

GeneID:335
TrivialName: PA14_69910
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69910
PAO1 Ortholog Locus:PA5296
Sequence Length:2010
Protein Length:669
Start: 6235930
Stop: 6237939
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08681.1|AE004942_4 (AE004942) ATP-dependent DNA helicase Rep [Pseudomonas aeruginosa PAO1]
Identities = 669/669 (100%), Positives = 669/669 (100%)
Sequence:
ATGTCCCGACTCAATCCCCGGCAGCAAGAAGCCGTGAACTACGTCGGCGGTCCCCTGCTGGTCCTGGCTGGC
GCCGGCTCCGGCAAGACCAGCGTGATCACCCGCAAGATCGCCTATCTCGTCCAGCAGTGCGGTATCCGCGCC
CAGTACATCGTCGCCGTGACCTTCACCAACAAGGCCGCGCGGGAGATGAAGGAGCGCGTCGGCACCCTGCTG
CGCGGCGGCGAGGGCAAGGGCCTGACCGTCTCGACCTTCCACAACCTCGGCCTGAACATCATCCGCAAGGAA
CACGAGCGGCTCGGCTACAAGCCCGGTTTCTCGATCTTCGACGAGTCGGACATCAAGGCGCTGCTGACCGAC
ATCATGCAGAAGGAGTATTCCGGGGACGACGGCGTCGACGAGATCAAGAACTACATCGGCGCCTGGAAGAAC
GACCTGATCCTTCCGGAGGAGGCGCTGGAAAAGGCCCGCAATCCCAAGGAGCAGACCGCCGCGATCGTCTAC
CTGCATTACCAGCGCACCCTGCGCGCCTACAACGCGGTGGACTTCGACGACCTGATCCTGCAACCGGTGAAG
CTGTTCCAGGAACATCCGGACGTCCTCCAGAAGTGGCAGAACAAGGTGCGCTACATGCTGGTGGACGAGTAC
CAGGACACCAACGCCAGCCAGTACCTGCTGGTCAAGCTGCTGGTGAAGGACCGCGCCCAGTTCACCGTGGTC
GGCGACGACGACCAGTCGATCTACGCCTGGCGCGGCGCGCGCCCGGAAAACCTGATGCAGCTGAAGGAAGAC
TTCCCTTCGCTGAAGGTGGTGATGCTGGAGCAGAACTACCGCTCCACCAGCCGCATCCTCAAGTGCGCGAAC
GTCCTCATCGCCAACAACCCGCACGTATTCGAGAAGCAGTTGTGGAGCGAGATGGGCCACGGCGATCCGATC
CGGGTGATCCGCTGCCGCAACGAGGACGCCGAGGCCGAGCGCATCGCCATGGAAATCCTCACCCTGCACCTG
CGCACCGAGCGGCCGTACAGCGAGTTCGCCATCCTCTACCGTGGCAACCACCAGGCCAAGCTGATGGAGCTG
AAGCTCCAGCACCACCAGATTCCCTATCGGCTCTCTGGCGGCACCAGCTTCTTCGGGCGCCAGGAAGTGAAG
GACCTGATGTCCTACTTCCGCCTGCTGGTGAACCCCGACGACGACAACGCCTTCCTCAGGGTGATCAACGTG
CCGCGCCGGGAAATCGGTTCGGCGACCCTGGAGAAGCTCGGCAACTACGCCACCCAGCGCAAGATATCGATG
TACGCCGCCTGCGACGAGATGGGCCTGGCCGAGCACCTCGACAGCCGTTTCCACGAACGCCTGCAACGCTTC
AAGCGCTGGATGGACGGTATCCGCCGACAGTGCGCGGAGAACGAGCCGATCGCCGTGCTGCGCAGCATGGTG
ATGGACATCGACTACGAGAACTGGCTGCGGCAGAACGCCTCCAGCGACAAGGTCGCCGAATTCCGCATGAGC
AACGTCTGGTTCCTCATCGAGGCACTGAAGAACACCCTCGAGCGCGACGAGGAAGGCGACATGACCATCGAG
CAGGCCATCGCCAAGCTGGTCCTGCGCGACATGCTGGAGCGCCAGCAGGAAGAAGAGGAAGGCGCCGAAGGC
GTGCAGATGATGACCCTGCACGCGTCGAAGGGGCTGGAGTTCCCCTACGTGTTCATCATGGGCATGGAGGAA
GAGATCCTGCCCCACCGTTCCAGCATCGAGGCCGACACGGTGGAAGAGGAGCGCCGCCTGGCCTACGTCGGC
ATCACCCGCGCGCGGCAGAACCTGGCGATGACCTTCGCCGCCAAGCGCAAGCAATACGGCGAGATCATCGAC
TGCTCGCCGAGCCGCTTCCTCGACGAACTGCCCCCCGAAGACCTCGAATGGGAAGGCATGGAAGACGCCCCG
CAAGAGGTCAAGGCGGCCAAGGGCAACGCCGCCCTCGCCGACATCCGCGCCATGCTCAAGCGCTGA
Translation:
MSRLNPRQQEAVNYVGGPLLVLAGAGSGKTSVITRKIAYLVQQCGIRAQYIVAVTFTNKAAREMKERVGTLL
RGGEGKGLTVSTFHNLGLNIIRKEHERLGYKPGFSIFDESDIKALLTDIMQKEYSGDDGVDEIKNYIGAWKN
DLILPEEALEKARNPKEQTAAIVYLHYQRTLRAYNAVDFDDLILQPVKLFQEHPDVLQKWQNKVRYMLVDEY
QDTNASQYLLVKLLVKDRAQFTVVGDDDQSIYAWRGARPENLMQLKEDFPSLKVVMLEQNYRSTSRILKCAN
VLIANNPHVFEKQLWSEMGHGDPIRVIRCRNEDAEAERIAMEILTLHLRTERPYSEFAILYRGNHQAKLMEL
KLQHHQIPYRLSGGTSFFGRQEVKDLMSYFRLLVNPDDDNAFLRVINVPRREIGSATLEKLGNYATQRKISM
YAACDEMGLAEHLDSRFHERLQRFKRWMDGIRRQCAENEPIAVLRSMVMDIDYENWLRQNASSDKVAEFRMS
NVWFLIEALKNTLERDEEGDMTIEQAIAKLVLRDMLERQQEEEEGAEGVQMMTLHASKGLEFPYVFIMGMEE
EILPHRSSIEADTVEEERRLAYVGITRARQNLAMTFAAKRKQYGEIIDCSPSRFLDELPPEDLEWEGMEDAP
QEVKAAKGNAALADIRAMLKR*
AnnotationID:345GeneID:335
AnnotatorUID: danlee
Modification Date/Time: 2005-10-17 14:02:31
Gene Name:rep
Confidence Code:2
GeneProduct:ATP-dependent DNA helicase Rep
Cell Localization:()
Synonyms:PA5296
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:COG0210,pfam00580
Secondary Functional Category(ies):
EC Number:3.6.1.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53667.1| (AE016856) ATP-dependent DNA helicase Rep [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 669

 Score = 1212 bits (3136), Expect = 0.0
 Identities = 592/669 (88%), Positives = 638/669 (95%)

>gb|AAN70829.1|AE016727_5 (AE016793) ATP-dependent DNA helicase Rep [Pseudomonas putida
           KT2440]
          Length = 669

 Score = 1175 bits (3039), Expect = 0.0
 Identities = 575/669 (85%), Positives = 626/669 (93%)

>dbj|BAC58304.1| (AP005073) ATP-dependent DNA helicase Rep [Vibrio parahaemolyticus]
          Length = 671

 Score =  754 bits (1946), Expect = 0.0
 Identities = 374/671 (55%), Positives = 501/671 (74%), Gaps = 5/671 (0%)






 
Structural Features:
COG0210, UvrD, Superfamily I DNA and RNA helicases 
[DNA replication, recombination, and repair]
CD-Length = 655 residues,  98.8% aligned
Score =  592 bits (1527), Expect = 4e-170
Identities = 289/653 (44%), Positives = 408/653 (62%), Gaps = 17/653 (2%)

pfam00580, UvrD-helicase, UvrD/REP helicase. 
CD-Length = 496 residues, 100.0% aligned
Score =  474 bits (1222), Expect = 1e-134
Identities = 220/496 (44%), Positives = 309/496 (62%), Gaps = 14/496 (2%)







   
Genomic Context:






   
Comment:


















    ReferenceID:673




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17815




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34790




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:335_cdd.html


    		




 
URL:

















    ReferenceID:35715




  
Author/Investigator(s):
        Avichezer D, Gilboa-Garber N, Katcoff DJ.





  
Title:
        Isolation and characterization of a Pseudomonas aeruginosa genomic DNA sequence, encoding a putative DNA helicase belonging to superfamily I.




  
PubMed:
        8820243


MedLine:
        




    
Source:
Microbios. 1995;84(340):187-94.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8820243









           
Homologs By Global Alignment 

           

       



     
Gene ID:335
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
554
                           PA5296_tr
                           translation of PA5296
                           669
                           99.99
                           99.99
                           0
                           3448.0
     

     
     
27116
                           gb|AAG08681.1|AE004942_4
                           (AE004942) ATP-dependent DNA helicase Rep [Pseudomonas aeruginosa PAO1]
                           669
                           99.99
                           99.99
                           0
                           3448.0
     

     
     
27117
                           gb|AAO53667.1|
                           (AE016856) ATP-dependent DNA helicase Rep [Pseudomonas syringae pv. tomato str. DC3000]
                           669
                           88.49
                           95.36
                           0
                           3136.0
     

     
     
27118
                           gb|AAN70829.1|AE016727_5
                           (AE016793) ATP-dependent DNA helicase Rep [Pseudomonas putida KT2440]
                           669
                           85.94
                           93.57
                           0
                           3039.0
     

     
     
27119
                           gb|AAF43958.1|U07832_2
                           (U07832) helicase I [Pseudomonas aeruginosa]
                           669
                           74.14
                           74.14
                           171
                           2570.0
     

     






      

          
GC ORFID: 43337How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5296Glimmer Score: 

          
Start: 5499618Stop: 5501627

          
Length: 2010


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5296 translation of PA5296Homolog Bit Score 1332.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3009 (ORF: BLASTX 1215.0), t_PA5296 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCCGACTCAATCCCCGGCAGCAAGAAGCCGTGAACTACGTCGGCGGTCCCCTGCTGGTCCTGGCTGGC 
GCCGGCTCCGGCAAGACCAGCGTGATCACCCGCAAGATCGCCTATCTCGTCCAGCAGTGCGGTATCCGCGCC 
CAGTACATCGTCGCCGTGACCTTCACCAACAAGGCCGCGCGGGAGATGAAGGAGCGCGTCGGCACCCTGCTG 
CGCGGCGGCGAGGGCAAGGGCCTGACCGTCTCGACCTTCCACAACCTCGGCCTGAACATCATCCGCAAGGAA 
CACGAGCGGCTCGGCTACAAGCCCGGTTTCTCGATCTTCGACGAGTCGGACATCAAGGCGCTGCTGACCGAC 
ATCATGCAGAAGGAGTATTCCGGGGACGACGGCGTCGACGAGATCAAGAACTACATCGGCGCCTGGAAGAAC 
GACCTGATCCTTCCGGAGGAGGCGCTGGAAAAGGCCCGCAATCCCAAGGAGCAGACCGCCGCGATCGTCTAC 
CTGCATTACCAGCGCACCCTGCGCGCCTACAACGCGGTGGACTTCGACGACCTGATCCTGCAACCGGTGAAG 
CTGTTCCAGGAACATCCGGACGTCCTCCAGAAGTGGCAGAACAAGGTGCGCTACATGCTGGTGGACGAGTAC 
CAGGACACCAACGCCAGCCAGTACCTGCTGGTCAAGCTGCTGGTGAAGGACCGCGCCCAGTTCACCGTGGTC 
GGCGACGACGACCAGTCGATCTACGCCTGGCGCGGCGCGCGCCCGGAAAACCTGATGCAGCTGAAGGAAGAC 
TTCCCTTCGCTGAAGGTGGTGATGCTGGAGCAGAACTACCGCTCCACCAGCCGCATCCTCAAGTGCGCGAAC 
GTCCTCATCGCCAACAACCCGCACGTATTCGAGAAGCAGTTGTGGAGCGAGATGGGCCACGGCGATCCGATC 
CGGGTGATCCGCTGCCGCAACGAGGACGCCGAGGCCGAGCGCATCGCCATGGAAATCCTCACCCTGCACCTG 
CGCACCGAGCGGCCGTACAGCGAGTTCGCCATCCTCTACCGTGGCAACCACCAGGCCAAGCTGATGGAGCTG 
AAGCTCCAGCACCACCAGATTCCCTATCGGCTCTCTGGCGGCACCAGCTTCTTCGGGCGCCAGGAAGTGAAG 
GACCTGATGTCCTACTTCCGCCTGCTGGTGAACCCCGACGACGACAACGCCTTCCTCAGGGTGATCAACGTG 
CCGCGCCGGGAAATCGGTTCGGCGACCCTGGAGAAGCTCGGCAACTACGCCACCCAGCGCAAGATATCGATG 
TACGCCGCCTGCGACGAGATGGGCCTGGCCGAGCACCTCGACAGCCGTTTCCACGAACGCCTGCAACGCTTC 
AAGCGCTGGATGGACGGTATCCGCCGACAGTGCGCGGAGAACGAGCCGATCGCCGTGCTGCGCAGCATGGTG 
ATGGACATCGACTACGAGAACTGGCTGCGGCAGAACGCCTCCAGCGACAAGGTCGCCGAATTCCGCATGAGC 
AACGTCTGGTTCCTCATCGAGGCACTGAAGAACACCCTCGAGCGCGACGAGGAAGGCGACATGACCATCGAG 
CAGGCCATCGCCAAGCTGGTCCTGCGCGACATGCTGGAGCGCCAGCAGGAAGAAGAGGAAGGCGCCGAAGGC 
GTGCAGATGATGACCCTGCACGCGTCGAAGGGGCTGGAGTTCCCCTACGTGTTCATCATGGGCATGGAGGAA 
GAGATCCTGCCCCACCGTTCCAGCATCGAGGCCGACACGGTGGAAGAGGAGCGCCGCCTGGCCTACGTCGGC 
ATCACCCGCGCGCGGCAGAACCTGGCGATGACCTTCGCCGCCAAGCGCAAGCAATACGGCGAGATCATCGAC 
TGCTCGCCGAGCCGCTTCCTCGACGAACTGCCCCCCGAAGACCTCGAATGGGAAGGCATGGAAGACGCCCCG 
CAAGAGGTCAAGGCGGCCAAGGGCAACGCCGCCCTCGCCGACATCCGCGCCATGCTCAAGCGCTGA