ViewGene
Locus Name:
GeneID:
Location:

GeneID:3444
TrivialName: PA14_18700
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_18700
PAO1 Ortholog Locus:PA3528
Sequence Length:675
Protein Length:224
Start: 1609998
Stop: 1609324
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06916.1|AE004773_5 (AE004773) ribonuclease T [Pseudomonas aeruginosa PAO1]
Identities = 224/224 (100%), Positives = 224/224 (100%)
Sequence:
ATGAGCGAAGACAACTTCGACGACGAATTCGACGGCAGCCTCCCCAGCGGCCCGCGCCATCCGATGGCGCGC
CGCTTCCGCGGCTACCTGCCGGTAGTGGTGGACGTCGAGACCGGCGGCTTCAACTCGGCCACCGACGCGCTG
CTGGAAATCGCCGCGACCACTGTCGGCATGGACGAGAAAGGCTTCCTGTTCCCGGAACACACCTACTTCTTC
CGCATCGAGCCCTTCGAAGGCGCCAACATCGAGCCGGCCGCGCTGGAATTCACCGGCATCAAGCTTGACCAC
CCGCTGCGCATGGCGGTGCAGGAGGAAGCGGCACTCACCGAGATCTTCCGCGGCATCCGCAAGGCGCTGAAG
GCCAATGGCTGCAAGCGGGCGATCCTGGTCGGCCACAACAGCAGCTTCGACCTCGGTTTCCTCAATGCCGCC
GTGGCGCGTACCGGGATCAAGCGCAATCCGTTCCATCCCTTCTCCAGCTTCGACACCGCCACCCTGGCTGGC
CTCGCCTACGGCCAGACGGTCCTGGCCAAGGCCTGCCAGGCCGCCGGCATGGAGTTCGACAACCGCGAGGCG
CACTCGGCACGCTACGACACCGAGAAGACCGCCGAGCTGTTCTGCGGCATCGTCAACCGCTGGAAGGAAATG
GGCGGCTGGATGGATGACGACGACTGA
Translation:
MSEDNFDDEFDGSLPSGPRHPMARRFRGYLPVVVDVETGGFNSATDALLEIAATTVGMDEKGFLFPEHTYFF
RIEPFEGANIEPAALEFTGIKLDHPLRMAVQEEAALTEIFRGIRKALKANGCKRAILVGHNSSFDLGFLNAA
VARTGIKRNPFHPFSSFDTATLAGLAYGQTVLAKACQAAGMEFDNREAHSARYDTEKTAELFCGIVNRWKEM
GGWMDDDD*
AnnotationID:3452GeneID:3444
AnnotatorUID: diggins
Modification Date/Time: 2005-04-19 16:04:50
Gene Name:rnt
Confidence Code:2
GeneProduct:ribonuclease T
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:smart00479,pfam00929,COG0847
Secondary Functional Category(ies):
EC Number:3.1.13.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57614.1| (AE016870) ribonuclease T [Pseudomonas syringae pv. tomato str.
           DC3000]
          Length = 225

 Score =  393 bits (1010), Expect = e-109
 Identities = 190/225 (84%), Positives = 206/225 (91%), Gaps = 1/225 (0%)

>gb|AAC74724.1| (AE000260) RNase T, degrades tRNA [Escherichia coli K12]
          Length = 215

 Score =  262 bits (670), Expect = 1e-69
 Identities = 125/195 (64%), Positives = 153/195 (78%)

>gb|AAO68952.1| (AE016838) ribonuclease T [Salmonella enterica subsp. enterica
           serovar Typhi Ty2]
          Length = 215

 Score =  259 bits (661), Expect = 1e-68
 Identities = 124/195 (63%), Positives = 150/195 (76%)






 
Structural Features:
smart00479, EXOIII, exonuclease domain in DNA-polymerase alpha and epsilon chain, 
ribonuclease T and other exonucleases
CD-Length = 171 residues,  98.8% aligned
Score = 91.9 bits (228), Expect = 5e-20
Identities = 57/187 (30%), Positives = 82/187 (43%), Gaps = 21/187 (11%)

pfam00929, Exonuc_X-T, Exonuclease. 
CD-Length = 162 residues, 100.0% aligned
Score = 86.6 bits (214), Expect = 2e-18
Identities = 59/180 (32%), Positives = 76/180 (42%), Gaps = 22/180 (12%)

COG0847, DnaQ, DNA polymerase III, epsilon subunit and related 3'-5' exonucleases 
[DNA replication, recombination, modification and repair]
CD-Length = 243 residues,  93.8% aligned
Score =  102 bits (256), Expect = 3e-23
Identities = 76/244 (31%), Positives = 102/244 (41%), Gaps = 58/244 (23%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6891




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24033




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32035




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3444_cdd.html


    		




 
URL:

















    ReferenceID:34121




  
Author/Investigator(s):
        Huang S, Deutscher MP.





  
Title:
        Sequence and transcriptional analysis of the Escherichia coli rnt gene encoding RNase T.




  
PubMed:
        1460056


MedLine:
        




    
Source:
J Biol Chem. 1992 Dec 15;267(35):25609-13.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1460056

















    ReferenceID:34122




  
Author/Investigator(s):
        Case LM, Chen XN, Deutscher MP.





  
Title:
        Localization of the Escherichia coli rnt gene encoding RNase T by using a combination of physical and genetic mapping.




  
PubMed:
        2676990


MedLine:
        




    
Source:
J Bacteriol. 1989 Oct;171(10):5736-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2676990









           
Homologs By Global Alignment 

           

       



     
Gene ID:3444
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5500
                           PA3528_tr
                           translation of PA3528
                           224
                           99.99
                           99.99
                           0
                           1181.0
     

     
     
153546
                           gb|AAG06916.1|AE004773_5
                           (AE004773) ribonuclease T [Pseudomonas aeruginosa PAO1]
                           224
                           99.99
                           99.99
                           0
                           1181.0
     

     
     
153547
                           gb|AAO57614.1|
                           (AE016870) ribonuclease T [Pseudomonas syringae pv. tomato str. DC3000]
                           225
                           84.44
                           91.55
                           1
                           1012.0
     

     
     
153548
                           gb|AAN66710.1|AE016299_6
                           (AE016778) ribonuclease T [Pseudomonas putida KT2440]
                           224
                           80.80
                           86.16
                           21
                           969.0
     

     
     
153551
                           dbj|BAC93946.1|
                           (AP005334) ribonuclease T [Vibrio vulnificus YJ016]
                           230
                           60.43
                           72.60
                           19
                           690.0
     

     






      

          
GC ORFID: 46446How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3528Glimmer Score: 

          
Start: 3343936Stop: 3344610

          
Length: 675


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3528 translation of PA3528Homolog Bit Score 459.0

          
Other Homologs:  psyr_15may02_Scaffold5_revised_gene6118 (ORF: BLASTX 398.0), t_PA3528 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGAAGACAACTTCGACGACGAATTCGACGGCAGCCTCCCCAGCGGCCCGCGCCATCCGATGGCGCGC 
CGCTTCCGCGGCTACCTGCCGGTAGTGGTGGACGTCGAGACCGGCGGCTTCAACTCGGCCACCGACGCGCTG 
CTGGAAATCGCCGCGACCACTGTCGGCATGGACGAGAAAGGCTTCCTGTTCCCGGAACACACCTACTTCTTC 
CGCATCGAGCCCTTCGAAGGCGCCAACATCGAGCCGGCCGCGCTGGAATTCACCGGCATCAAGCTTGACCAC 
CCGCTGCGCATGGCGGTGCAGGAGGAAGCGGCACTCACCGAGATCTTCCGCGGCATCCGCAAGGCGCTGAAG 
GCCAATGGCTGCAAGCGGGCGATCCTGGTCGGCCACAACAGCAGCTTCGACCTCGGTTTCCTCAATGCCGCC 
GTGGCGCGTACCGGGATCAAGCGCAATCCGTTCCATCCCTTCTCCAGCTTCGACACCGCCACCCTGGCTGGC 
CTCGCCTACGGCCAGACGGTCCTGGCCAAGGCCTGCCAGGCCGCCGGCATGGAGTTCGACAACCGCGAGGCG 
CACTCGGCACGCTACGACACCGAGAAGACCGCCGAGCTGTTCTGCGGCATCGTCAACCGCTGGAAGGAAATG 
GGCGGCTGGATGGATGACGACGACTGA