ViewGene
Locus Name:
GeneID:
Location:

GeneID:2527
TrivialName: PA14_69710
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69710
PAO1 Ortholog Locus:PA5280
Sequence Length:912
Protein Length:303
Start: 6217527
Stop: 6218438
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08665.1|AE004940_9 (AE004940) site-specific recombinase Sss [Pseudomonas aeruginosa PAO1]
Identities = 301/303 (99%), Positives = 301/303 (99%)
Sequence:
ATGCGCGCCGACCTGGATGCCTTCCTCGAACATCTGCGCAGCGAGCGCCAGGTCTCCGCGCACACCCTCGAC
GGCTACCGCCGCGACCTGCTGAAGATCCTCGCCCTCGCCGAAAAGGCCGGGCTCTCCGACTGGAACGCCCTC
GACACCCGCAGCCTGCGCACCTTCGTCGCCCGCCTGCACCAGCAGGGCCAATCCAGCCGCAGCCTGGCACGG
CTGCTCTCGGCGACGCGCGGCCTCTACCAGTACCTGCTACGCGAAGGGCGCTGCCGGCACGACCCTGCCAAC
GGCCTGAGCGCGCCGAAGAGTCCGCGCAAGCTGCCCAGGACCCTCGACGCCGACCGCGCCCTGCAATTGCTC
GACGGTGCCGTGGAGGATGACTTCATCGCCCGCCGCGACCAGGCCCTGCTGGAGCTGTTCTATTCCTCCGGG
CTGCGCCTCTCGGAACTGGTCGGCCTCGATCTCGAATGGCTGGACCTCAAGGAAGGCCTGGTGCGAGTGCGC
GGCAAGGGCAACAAGGTCCGCGAGCTGCCGGTCGGCAAGGCCGCGCGCCAGGCGCTCGAAGCCTGGCTGCCG
CTGCGCGCCCAGGCCGCTCCGGAAGACGGAGCGGTGTTCATCGGCCGCGGCGGCAAGCGCCTGACGCCACGG
GCGATCCAACTGCGAGTGCGCCAGGCCGGCGTCCGCGAGTTGGGCCAGCACCTGCACCCGCACATGCTGCGG
CATTCCTTCGCCAGCCATCTGCTGGAGTCGTCCGGCGACCTGCGCGCCGTGCAGGAACTGCTCGGCCACGCC
GACATCGCCACGACCCAGATCTATACCCACCTGGACTTCCAGCACCTGGCCTCGGTCTACGACCGCGCCCAT
CCCCGCGCCAAGCGCAAGGGCAACGCCGATGGAGGCAACGACCCATGA
Translation:
MRADLDAFLEHLRSERQVSAHTLDGYRRDLLKILALAEKAGLSDWNALDTRSLRTFVARLHQQGQSSRSLAR
LLSATRGLYQYLLREGRCRHDPANGLSAPKSPRKLPRTLDADRALQLLDGAVEDDFIARRDQALLELFYSSG
LRLSELVGLDLEWLDLKEGLVRVRGKGNKVRELPVGKAARQALEAWLPLRAQAAPEDGAVFIGRGGKRLTPR
AIQLRVRQAGVRELGQHLHPHMLRHSFASHLLESSGDLRAVQELLGHADIATTQIYTHLDFQHLASVYDRAH
PRAKRKGNADGGNDP*
AnnotationID:2535GeneID:2527
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 08:08:01
Gene Name:sss
Confidence Code:1
GeneProduct:site-specific recombinase
Cell Localization:()
Synonyms:xerC
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:COG4973,cd00798,COG4974
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53768.1| (AE016856) integrase/recombinase XerC [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 299

 Score =  439 bits (1130), Expect = e-123
 Identities = 219/298 (73%), Positives = 247/298 (82%)

>gb|AAO17715.1| (AY172655) site-specific recombinase [Pseudomonas fluorescens]
          Length = 299

 Score =  429 bits (1103), Expect = e-119
 Identities = 215/293 (73%), Positives = 243/293 (82%)

>gb|AAN70795.1|AE016723_7 (AE016793) integrase/recombinase XerC [Pseudomonas putida KT2440]
          Length = 299

 Score =  422 bits (1086), Expect = e-118
 Identities = 210/298 (70%), Positives = 241/298 (80%)






 
Structural Features:
COG4973, XerC, Site-specific recombinase XerC 
[DNA replication, recombination, and repair]
CD-Length = 299 residues,  98.3% aligned
Score =  405 bits (1041), Expect = 4e-114
Identities = 184/295 (62%), Positives = 224/295 (75%), Gaps = 2/295 (0%)

cd00798, INT_XerDC, XerD and XerC integrases, 
DNA breaking-rejoining enzymes, N- and C-terminal domains.
CD-Length = 284 residues, 100.0% aligned
Score =  295 bits (756), Expect = 5e-81

COG4974, XerD, Site-specific recombinase XerD 
[DNA replication, recombination, and repair]
CD-Length = 300 residues,  97.3% aligned
Score =  283 bits (725), Expect = 2e-77
Identities = 132/292 (45%), Positives = 184/292 (63%), Gaps = 5/292 (1%)







   
Genomic Context:






   
Comment:


















    ReferenceID:5057




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22203




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34810




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2527_cdd.html


    		




 
URL:

















    ReferenceID:35719




  
Author/Investigator(s):
        Hofte M, Dong Q, Kourambas S, Krishnapillai V, Sherratt D, Mergeay M.





  
Title:
        The sss gene product, which affects pyoverdin production in Pseudomonas aeruginosa 7NSK2, is a site-specific recombinase.




  
PubMed:
        7715441


MedLine:
        




    
Source:
Mol Microbiol. 1994 Dec;14(5):1011-20.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7715441









           
Homologs By Global Alignment 

           

       



     
Gene ID:2527
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4215
                           PA5280_tr
                           translation of PA5280
                           303
                           99.33
                           99.33
                           0
                           1535.0
     

     
     
124318
                           gb|AAG08665.1|AE004940_9
                           (AE004940) site-specific recombinase Sss [Pseudomonas aeruginosa PAO1]
                           303
                           99.33
                           99.33
                           0
                           1535.0
     

     
     
124319
                           emb|CAA55226.1|
                           (X78478) sss [Pseudomonas aeruginosa]
                           303
                           96.69
                           97.02
                           1
                           1478.0
     

     
     
124320
                           gb|AAO53768.1|
                           (AE016856) integrase/recombinase XerC [Pseudomonas syringae pv. tomato str. DC3000]
                           303
                           72.27
                           81.51
                           4
                           1129.0
     

     
     
124321
                           gb|AAO17715.1|
                           (AY172655) site-specific recombinase [Pseudomonas fluorescens]
                           304
                           71.38
                           80.92
                           6
                           1104.0
     

     






      

          
GC ORFID: 45529How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5280Glimmer Score: 

          
Start: 5481214Stop: 5482125

          
Length: 912


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5280 translation of PA5280Homolog Bit Score 595.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3117 (ORF: BLASTX 436.0), t_PA5280 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGCGCCGACCTGGATGCCTTCCTCGAACATCTGCGCAGCGAGCGCCAGGTCTCCGCGCACACCCTCGAC 
GGCTACCGCCGCGACCTGCTGAAGATCCTCGCCCTCGCCGAAAAGGCCGGGCTCTCCGACTGGAACGCCCTC 
GACACCCGCAGCCTGCGCACCTTCGTCGCCCGCCTGCACCAGCAGGGCCAATCCAGCCGCAGCCTGGCACGG 
CTGCTCTCGGCGACGCGCGGCCTCTACCAGTACCTGCTACGCGAAGGGCGCTGCCGGCACGACCCTGCCAAC 
GGCCTGAGCGCGCCGAAGAGTCCGCGCAAGCTGCCCAGGACCCTCGACGCCGACCGCGCCCTGCAATTGCTC 
GACGGTGCCGTGGAGGATGACTTCATCGCCCGCCGCGACCAGGCCCTGCTGGAGCTGTTCTATTCCTCCGGG 
CTGCGCCTCTCGGAACTGGTCGGCCTCGATCTCGAATGGCTGGACCTCAAGGAAGGCCTGGTGCGAGTGCGC 
GGCAAGGGCAACAAGGTCCGCGAGCTGCCGGTCGGCAAGGCCGCGCGCCAGGCGCTCGAAGCCTGGCTGCCG 
CTGCGCGCCCAGGCCGCTCCGGAAGACGGAGCGGTGTTCATCGGCCGCGGCGGCAAGCGCCTGACGCCACGG 
GCGATCCAACTGCGAGTGCGCCAGGCCGGCGTCCGCGAGTTGGGCCAGCACCTGCACCCGCACATGCTGCGG 
CATTCCTTCGCCAGCCATCTGCTGGAGTCGTCCGGCGACCTGCGCGCCGTGCAGGAACTGCTCGGCCACGCC 
GACATCGCCACGACCCAGATCTATACCCACCTGGACTTCCAGCACCTGGCCTCGGTCTACGACCGCGCCCAT 
CCCCGCGCCAAGCGCAAGGGCAACGCCGATGGAGGCAACGACCCATGA