ViewGene
Locus Name:
GeneID:
Location:

GeneID:761
TrivialName: PA14_61640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_61640
PAO1 Ortholog Locus:PA4660
Sequence Length:1446
Protein Length:481
Start: 5499831
Stop: 5501276
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08047.1|AE004880_3 (AE004880) deoxyribodipyrimidine photolyase [Pseudomonas aeruginosa PAO1]
Identities = 478/481 (99%), Positives = 480/481 (99%)
Sequence:
ATGAACGGACTTCCGATGAACCTGATCTGGTTTCGCTGCGACCTGCGAACCACCGATAACAGCGCGCTCCTC
GCCGCCGCCGATGGACGCCCTTGCGTGGCCCTCTACCTGCTCAGCCCGGCGCAGTGGCGGGAACACGACGAT
GCGCCCTGCAAGGTCGACTTCTGGCTGCGCAACCTGGGCGAGCTGCAACGCCAGCTCGCCGCGCTGAACATC
CCGCTGCTGGTGCGCGACTGCGGCCACTGGCGGCAAGCCCCGGAAGTCATCGGCCGGCTCTGCCGGGAGCTG
GGAATCGGCGCGGTACACGTCAACCAGGAATACGGGGTGAACGAGGAACGCCGCGACCAGGCCGTCGGCCAA
CGCCTGCGCGAACAGGGCGTGGCCTTCCACAGCCACCTCGACCAGCTGTTCTTCGCCCCCGGCTCGGTGCTG
ACCCGAACTGGCGGCTATTTCCAGGTGTTCAGCCAGTTCCGCAAGGTCTGCCACGAACGGCTGTACCAGGCC
CTGCCGGGTGTCCGCCCGCGTCCGCAGCCCCAACCACCGCACGCGCTGGCCAGCGACCCGCTGCCGGATGCC
GTGCCCGCCTTCCCGCGGCCGGCCGATAGCTTGCGCCGCCTCTGGCCGGCAGGCGAAGAGGTAGCGCAGGAA
CGCCTGCGCGGCTTCGCCGACCAGCACCTGGCCGACTACCATGAACGGCGCGACTTCCCGGCGCTTCCCGGC
ACCAGCCAACTGTCGCCCTACCTGGCCGCCGGCGTACTCTCGCCCAGGCAATGCCTGGACGCCGCGCTGGTT
GCCAACCGCGGCGAGTTCAGCGGCGGCCAGCAAGGCGCCGCGACCTGGATCAACGAGCTGCTCTGGCGCGAG
TTCTACAAGCACATCCTGGTCGGCTACCCACGGGTCTCCCGGCACCGCCCCTTCCGCGAGGAGACCGAAGCC
CTGCGCTGGCGCCAGGCCCCGGCGGAACTCGAAGCCTGGCAACAGGGGCGCACCGGCATACCGATCATCGAT
GCAGCAATGCGCCAGTTGCTCGCCACCGGCTGGATGCACAATCGCCTGCGGATGGTGGTAGCGATGTTCCTC
AGCAAGAACCTGCTGATCGACTGGCGCGAAGGCGAACGCTGGTTCATGCGCCACCTCATCGACGGCGACCTG
GCGGCGAACAACGGTGGCTGGCAGTGGAGCGCATCCACCGGCACCGACGCCGTCCCCTACTTCCGCCTGTTC
AATCCGCTCTCGCAGTCCGAACGCTTCGATCCACGCGGCGAGTTCATCCGCCACTGGCTGCCGGAACTGGCC
GGCCTGGAGCGCAAGGCGATCCACGATCCGTCCAGCCTGGGGCTGTTCGCCGGGGTCGACTATCCACGGCCG
ATGGTCGACCTGAAGGCCAGCCGCGAACGGGCGCTGGCGGCTTTCCGCAACCTGCCGCCGCGCGATGGTCGC
GCGTAG
Translation:
MNGLPMNLIWFRCDLRTTDNSALLAAADGRPCVALYLLSPAQWREHDDAPCKVDFWLRNLGELQRQLAALNI
PLLVRDCGHWRQAPEVIGRLCRELGIGAVHVNQEYGVNEERRDQAVGQRLREQGVAFHSHLDQLFFAPGSVL
TRTGGYFQVFSQFRKVCHERLYQALPGVRPRPQPQPPHALASDPLPDAVPAFPRPADSLRRLWPAGEEVAQE
RLRGFADQHLADYHERRDFPALPGTSQLSPYLAAGVLSPRQCLDAALVANRGEFSGGQQGAATWINELLWRE
FYKHILVGYPRVSRHRPFREETEALRWRQAPAELEAWQQGRTGIPIIDAAMRQLLATGWMHNRLRMVVAMFL
SKNLLIDWREGERWFMRHLIDGDLAANNGGWQWSASTGTDAVPYFRLFNPLSQSERFDPRGEFIRHWLPELA
GLERKAIHDPSSLGLFAGVDYPRPMVDLKASRERALAAFRNLPPRDGRA*
AnnotationID:770GeneID:761
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 20:08:50
Gene Name:phr
Confidence Code:2
GeneProduct:deoxyribodipyrimidine photolyase
Cell Localization:()
Synonyms:phrB
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:COG0415,pfam03441
Secondary Functional Category(ies):
EC Number:4.1.99.3
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54650.1| (AE016859) deoxyribodipyrimidine photolyase [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 482

 Score =  671 bits (1732), Expect = 0.0
 Identities = 319/477 (66%), Positives = 373/477 (78%), Gaps = 1/477 (0%)

>gb|AAN66364.1|AE016264_8 (AE016776) deoxyribodipyrimidine photolyase [Pseudomonas putida
           KT2440]
          Length = 480

 Score =  642 bits (1656), Expect = 0.0
 Identities = 307/476 (64%), Positives = 361/476 (75%), Gaps = 1/476 (0%)

>gb|AAM84843.1|AE013730_2 (AE013730) deoxyribodipyrimidine photolyase (photoreactivation)
           [Yersinia pestis KIM]
          Length = 487

 Score =  428 bits (1101), Expect = e-119
 Identities = 221/470 (47%), Positives = 295/470 (62%), Gaps = 10/470 (2%)






 
Structural Features:
COG0415, PhrB, Deoxyribodipyrimidine photolyase 
[DNA replication, recombination, and repair]
CD-Length = 461 residues,  99.6% aligned
Score =  524 bits (1351), Expect = 8e-150
Identities = 231/473 (48%), Positives = 297/473 (62%), Gaps = 17/473 (3%)

pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase.
CD-Length = 267 residues,  98.5% aligned
Score =  294 bits (753), Expect = 2e-80
Identities = 118/265 (44%), Positives = 157/265 (59%), Gaps = 3/265 (1%)







   
Genomic Context:






   
Comment:


















    ReferenceID:1525




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18667




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37594




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:761_cdd.html


    		




 
URL:

















    ReferenceID:37771




  
Author/Investigator(s):
        Kim JJ, Sundin GW.





  
Title:
        Construction and analysis of photolyase mutants of Pseudomonas aeruginosa and Pseudomonas syringae: contribution of photoreactivation, nucleotide excision repair, and mutagenic DNA repair to cell survival and mutability following exposure to UV-B radiatio




  
PubMed:
        11282583


MedLine:
        




    
Source:
Appl Environ Microbiol. 2001 Apr;67(4):1405-11.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11282583

















    ReferenceID:37772




  
Author/Investigator(s):
        Sancar GB, Smith FW, Lorence MC, Rupert CS, Sancar A.





  
Title:
        Sequences of the Escherichia coli photolyase gene and protein.




  
PubMed:
        6325460


MedLine:
        




    
Source:
J Biol Chem. 1984 May 10;259(9):6033-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6325460

















    ReferenceID:37773




  
Author/Investigator(s):
        Li YF, Sancar A.





  
Title:
        Cloning, sequencing, expression and characterization of DNA photolyase from Salmonella typhimurium.




  
PubMed:
        1840665


MedLine:
        




    
Source:
Nucleic Acids Res. 1991 Sep 25;19(18):4885-90.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1840665









           
Homologs By Global Alignment 

           

       



     
Gene ID:761
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1341
                           PA4660_tr
                           translation of PA4660
                           481
                           99.37
                           99.79
                           0
                           2581.0
     

     
     
49756
                           gb|AAG08047.1|AE004880_3
                           (AE004880) deoxyribodipyrimidine photolyase [Pseudomonas aeruginosa PAO1]
                           481
                           99.37
                           99.79
                           0
                           2581.0
     

     
     
49757
                           gb|AAO54650.1|
                           (AE016859) deoxyribodipyrimidine photolyase [Pseudomonas syringae pv. tomato str. DC3000]
                           487
                           65.50
                           76.59
                           11
                           1734.0
     

     
     
49758
                           gb|AAN66364.1|AE016264_8
                           (AE016776) deoxyribodipyrimidine photolyase [Pseudomonas putida KT2440]
                           485
                           63.29
                           74.43
                           9
                           1658.0
     

     
     
49763
                           gb|AAL19653.1|
                           (AE008728) deoxyribodipyrimidine photolyase (photoreactivation) [Salmonella typhimurium LT2]
                           487
                           46.40
                           60.36
                           20
                           1058.0
     

     






      

          
GC ORFID: 43763How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4660Glimmer Score: 

          
Start: 4763511Stop: 4764956

          
Length: 1446


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA4660 translation of PA4660Homolog Bit Score 998.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene5083 (ORF: BLASTX 663.0), t_PA4660 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACGGACTTCCGATGAACCTGATCTGGTTTCGCTGCGACCTGCGAACCACCGATAACAGCGCGCTCCTC 
GCCGCCGCCGATGGACGCCCTTGCGTGGCCCTCTACCTGCTCAGCCCGGCGCAGTGGCGGGAACACGACGAT 
GCGCCCTGCAAGGTCGACTTCTGGCTGCGCAACCTGGGCGAGCTGCAACGCCAGCTCGCCGCGCTGAACATC 
CCGCTGCTGGTGCGCGACTGCGGCCACTGGCGGCAAGCCCCGGAAGTCATCGGCCGGCTCTGCCGGGAGCTG 
GGAATCGGCGCGGTACACGTCAACCAGGAATACGGGGTGAACGAGGAACGCCGCGACCAGGCCGTCGGCCAA 
CGCCTGCGCGAACAGGGCGTGGCCTTCCACAGCCACCTCGACCAGCTGTTCTTCGCCCCCGGCTCGGTGCTG 
ACCCGAACTGGCGGCTATTTCCAGGTGTTCAGCCAGTTCCGCAAGGTCTGCCACGAACGGCTGTACCAGGCC 
CTGCCGGGTGTCCGCCCGCGTCCGCAGCCCCAACCACCGCACGCGCTGGCCAGCGACCCGCTGCCGGATGCC 
GTGCCCGCCTTCCCGCGGCCGGCCGATAGCTTGCGCCGCCTCTGGCCGGCAGGCGAAGAGGTAGCGCAGGAA 
CGCCTGCGCGGCTTCGCCGACCAGCACCTGGCCGACTACCATGAACGGCGCGACTTCCCGGCGCTTCCCGGC 
ACCAGCCAACTGTCGCCCTACCTGGCCGCCGGCGTACTCTCGCCCAGGCAATGCCTGGACGCCGCGCTGGTT 
GCCAACCGCGGCGAGTTCAGCGGCGGCCAGCAAGGCGCCGCGACCTGGATCAACGAGCTGCTCTGGCGCGAG 
TTCTACAAGCACATCCTGGTCGGCTACCCACGGGTCTCCCGGCACCGCCCCTTCCGCGAGGAGACCGAAGCC 
CTGCGCTGGCGCCAGGCCCCGGCGGAACTCGAAGCCTGGCAACAGGGGCGCACCGGCATACCGATCATCGAT 
GCAGCAATGCGCCAGTTGCTCGCCACCGGCTGGATGCACAATCGCCTGCGGATGGTGGTAGCGATGTTCCTC 
AGCAAGAACCTGCTGATCGACTGGCGCGAAGGCGAACGCTGGTTCATGCGCCACCTCATCGACGGCGACCTG 
GCGGCGAACAACGGTGGCTGGCAGTGGAGCGCATCCACCGGCACCGACGCCGTCCCCTACTTCCGCCTGTTC 
AATCCGCTCTCGCAGTCCGAACGCTTCGATCCACGCGGCGAGTTCATCCGCCACTGGCTGCCGGAACTGGCC 
GGCCTGGAGCGCAAGGCGATCCACGATCCGTCCAGCCTGGGGCTGTTCGCCGGGGTCGACTATCCACGGCCG 
ATGGTCGACCTGAAGGCCAGCCGCGAACGGGCGCTGGCGGCTTTCCGCAACCTGCCGCCGCGCGATGGTCGC 
GCGTAG