ViewGene
Locus Name:
GeneID:
Location:

GeneID:1741
TrivialName: PA14_00030
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_00030
PAO1 Ortholog Locus:PA0003
Sequence Length:1110
Protein Length:369
Start: 3169
Stop: 4278
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03393.1|AE004440_3 (AE004440) RecF protein [Pseudomonas aeruginosa PAO1]
Identities = 369/369 (100%), Positives = 369/369 (100%)
Sequence:
ATGTCCCTGACCCGCGTTTCGgTCACCGCGGTGCGCAACCTGCACCCGGTGACCCTCTCCCCCTCCCCTCGC
ATCAACATCCTCTACGGCGATAATGGCAGCGGCAAGACCAGTGTGCTCGAAGCCATCCACCTGCTGGGCCTG
GCGCGTTCATTCCGCAGTGCGCGCTTGCAGCCGGTGATCCAGTATGAGGAAGCGGCCTGCACCGTATTCGGC
CAGGTGATGTTGGCCAACGGCATCGCCAGCAACCTGGGGATTTCCCGTGAGCGCCAGGGCGAGTTCACCATC
CGCATCGATGGGCAGAACGCCCGGAGTGCGGCTCAATTGGCGGAAACTCTCCCACTGCAACTGATCAACCCG
GACAGCTTTCGGTTGCTCGAGGGAGCGCCGAAGATCCGCCGACAGTTCCTCGATTGGGGAGTGTTCCACGTG
GAACCTCGGTTTCTGCCCGTCTGGCAGCGCCTGCAGAAGGCGCTGCGCCAGCGGAACTCCTGGCTCCGGCAT
GGTAAACTGGACCCCGCGTCGCAAGCGGCCTGGGACCGGGAATTGAGCCTGGCCAGCGATGAGATCGATGCC
TACCGCAGAAGCTATATCCAGGCGTTGAAACCGGTATTCGAGGAAACACTCGCCGAATTGGTTTCACTGGAT
GACCTGACCCTTAGCTACTACCGAGGCTGGGACAAGGACCGGGACCTCCTGGAGGTTCTGGCTTCCAGCCTG
TTGCGCGACCAGCAGATGGGCCACACCCAGGCGGGACCGCAGCGTGCGGATCTTCGCATACGGTTGGCAGGT
CATAACGCCGCGGAGATTCTCTCGCGCGGTCAGCAGAAGCTGGTGGTATGCGCCCTGCGCATCGCCCAAGGC
CATCTGATCAATCGCGCCAAGCGCGGACAGTGCGTCTACCTGGTGGACGACCTGCCCTCGGAATTGGATGAG
CAGCATCGAATGGCTCTTTGCCGCTTGCTTGAAGATTTGGGTTGCCAGGTATTCATCACCTGCGTGGACCCG
CAACTATTGAAAGACGGCTGGCGCACGGATACGCCGGTATCCATGTTCCACGTGGAACATGGAAAAGTCTCT
CAGACCACGACCATCGGGAGTGAAGCATGA
Translation:
MSLTRVSVTAVRNLHPVTLSPSPRINILYGDNGSGKTSVLEAIHLLGLARSFRSARLQPVIQYEEAACTVFG
QVMLANGIASNLGISRERQGEFTIRIDGQNARSAAQLAETLPLQLINPDSFRLLEGAPKIRRQFLDWGVFHV
EPRFLPVWQRLQKALRQRNSWLRHGKLDPASQAAWDRELSLASDEIDAYRRSYIQALKPVFEETLAELVSLD
DLTLSYYRGWDKDRDLLEVLASSLLRDQQMGHTQAGPQRADLRIRLAGHNAAEILSRGQQKLVVCALRIAQG
HLINRAKRGQCVYLVDDLPSELDEQHRMALCRLLEDLGCQVFITCVDPQLLKDGWRTDTPVSMFHVEHGKVS
QTTTIGSEA*
AnnotationID:1750GeneID:1741
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 09:09:11
Gene Name:recF
Confidence Code:2
GeneProduct:DNA replication and repair protein RecF
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:COG1195
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65646.1|AE016191_3 (AE016774) DNA replication and repair protein RecF [Pseudomonas
           putida KT2440]
          Length = 367

 Score =  629 bits (1621), Expect = e-179
 Identities = 307/362 (84%), Positives = 336/362 (92%)

>gb|AAO53560.1| (AE016856) DNA replication and repair protein RecF [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 367

 Score =  608 bits (1568), Expect = e-173
 Identities = 296/362 (81%), Positives = 332/362 (91%)

>gb|AAN53097.1|AE015452_10 (AE015452) DNA replication and repair protein RecF [Shewanella
           oneidensis MR-1]
          Length = 360

 Score =  317 bits (813), Expect = 6e-86
 Identities = 165/361 (45%), Positives = 228/361 (63%), Gaps = 5/361 (1%)








 
Structural Features:
COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway) 
[DNA replication, recombination, and repair]
CD-Length = 363 residues, 100.0% aligned
Score =  371 bits (954), Expect = 7e-104
Identities = 134/367 (36%), Positives = 201/367 (54%), Gaps = 10/367 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3485




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20632




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33368




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1741_cdd.html


    		




 
URL:

















    ReferenceID:35537




  
Author/Investigator(s):
        Blanar MA, Sandler SJ, Armengod ME, Ream LW, Clark AJ.





  
Title:
        Molecular analysis of the recF gene of Escherichia coli.




  
PubMed:
        6379647


MedLine:
        




    
Source:
Proc Natl Acad Sci U S A. 1984 Aug;81(15):4622-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6379647

















    ReferenceID:35550




  
Author/Investigator(s):
        Fsihi H, De Rossi E, Salazar L, Cantoni R, Labo M, Riccardi G, Takiff HE, Eiglmeier K, Bergh S, Cole ST.





  
Title:
        Gene arrangement and organization in a approximately 76 kb fragment encompassing the oriC region of the chromosome of Mycobacterium leprae.




  
PubMed:
        8969512


MedLine:
        




    
Source:
Microbiology. 1996 Nov;142 ( Pt 11):3147-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8969512









           
Homologs By Global Alignment 

           

       



     
Gene ID:1741
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3056
                           PA0003_tr
                           translation of PA0003
                           369
                           99.99
                           99.99
                           0
                           1894.0
     

     
     
94306
                           gb|AAG03393.1|AE004440_3
                           (AE004440) RecF protein [Pseudomonas aeruginosa PAO1]
                           369
                           99.99
                           99.99
                           0
                           1894.0
     

     
     
94307
                           gb|AAN65646.1|AE016191_3
                           (AE016774) DNA replication and repair protein RecF [Pseudomonas putida KT2440]
                           369
                           83.19
                           91.05
                           2
                           1613.0
     

     
     
94309
                           emb|CAA44365.1|
                           (X62504) recF protein [Pseudomonas putida]
                           369
                           81.02
                           89.15
                           4
                           1551.0
     

     
     
94308
                           gb|AAO53560.1|
                           (AE016856) DNA replication and repair protein RecF [Pseudomonas syringae pv. tomato str. DC3000]
                           369
                           80.21
                           89.97
                           2
                           1560.0
     

     






      

          
GC ORFID: 44743How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0003Glimmer Score: 

          
Start: 5804506Stop: 5805615

          
Length: 1110


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0003 translation of PA0003Homolog Bit Score 734.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene2968 (ORF: BLASTX 604.0), t_PA0003 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCCTGACCCGCGTTTCGgTCACCGCGGTGCGCAACCTGCACCCGGTGACCCTCTCCCCCTCCCCTCGC 
ATCAACATCCTCTACGGCGATAATGGCAGCGGCAAGACCAGTGTGCTCGAAGCCATCCACCTGCTGGGCCTG 
GCGCGTTCATTCCGCAGTGCGCGCTTGCAGCCGGTGATCCAGTATGAGGAAGCGGCCTGCACCGTATTCGGC 
CAGGTGATGTTGGCCAACGGCATCGCCAGCAACCTGGGGATTTCCCGTGAGCGCCAGGGCGAGTTCACCATC 
CGCATCGATGGGCAGAACGCCCGGAGTGCGGCTCAATTGGCGGAAACTCTCCCACTGCAACTGATCAACCCG 
GACAGCTTTCGGTTGCTCGAGGGAGCGCCGAAGATCCGCCGACAGTTCCTCGATTGGGGAGTGTTCCACGTG 
GAACCTCGGTTTCTGCCCGTCTGGCAGCGCCTGCAGAAGGCGCTGCGCCAGCGGAACTCCTGGCTCCGGCAT 
GGTAAACTGGACCCCGCGTCGCAAGCGGCCTGGGACCGGGAATTGAGCCTGGCCAGCGATGAGATCGATGCC 
TACCGCAGAAGCTATATCCAGGCGTTGAAACCGGTATTCGAGGAAACACTCGCCGAATTGGTTTCACTGGAT 
GACCTGACCCTTAGCTACTACCGAGGCTGGGACAAGGACCGGGACCTCCTGGAGGTTCTGGCTTCCAGCCTG 
TTGCGCGACCAGCAGATGGGCCACACCCAGGCGGGACCGCAGCGTGCGGATCTTCGCATACGGTTGGCAGGT 
CATAACGCCGCGGAGATTCTCTCGCGCGGTCAGCAGAAGCTGGTGGTATGCGCCCTGCGCATCGCCCAAGGC 
CATCTGATCAATCGCGCCAAGCGCGGACAGTGCGTCTACCTGGTGGACGACCTGCCCTCGGAATTGGATGAG 
CAGCATCGAATGGCTCTTTGCCGCTTGCTTGAAGATTTGGGTTGCCAGGTATTCATCACCTGCGTGGACCCG 
CAACTATTGAAAGACGGCTGGCGCACGGATACGCCGGTATCCATGTTCCACGTGGAACATGGAAAAGTCTCT 
CAGACCACGACCATCGGGAGTGAAGCATGA