ViewGene
Locus Name:
GeneID:
Location:

GeneID:2945
TrivialName: PA14_07730
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_07730
PAO1 Ortholog Locus:PA0592
Sequence Length:807
Protein Length:268
Start: 664202
Stop: 663396
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03981.1|AE004495_5 (AE004495) rRNA (adenine-N6,N6)-dimethyltransferase [Pseudomonas aeruginosa PAO1]
Identities = 267/268 (99%), Positives = 268/268 (100%)
Sequence:
ATGTCCGAGCTTTACCAACACCGCGCGCGCAAGCGCTTCGGCCAGAACTTCCTGCACGATGCCGGGGTGATT
CACCGCATCCTCCGTGCCATCCATGCCCGCGAGGGTCAGCGCCTGCTGGAGATCGGCCCGGGCCAGGGTGCC
CTGACCGAGGGACTGCTGGGCAGCGGCGCACGCCTGGACGTGATCGAGCTCGACCAGGACCTGATCCCCCTG
TTGAAGCTGAAATTCGGCCTCGAGTCGCGCTTCAGCCTGCACCAGGGCGACGCCCTCAAGTTCGATTTCGCC
TCGCTGGTGGAGAGCGGCGAGAAGTTGCGAGTGGTCGGCAACCTGCCCTACAACATCTCCACGCCACTGATC
TTCCATCTGCTGGAGCACGCGCCGGTGATCGAGGACATGCACTTCATGCTGCAGAAGGAAGTGGTCGAGCGC
CTGGCGGCCACGCCGGGCGGCGGGGACTGGGGCCGGCTCTCGATCATGGTCCAGTATCACTGTCGGGTGGAG
CACCTGTTCAACGTCGGCCCCGGCGCGTTCAACCCGCCGCCCAAGGTCGACTCGGCCATCGTCCGCCTCACC
CCCTTCGCCGAGCCGCCCCATCCGGCACGCGATCCGAAACTGCTCGAACGGGTGGTCCGCGAGGCCTTCAAC
CAGCGCCGCAAGACCCTGCGCAACACCCTCAAGCCTCTCCTGAGCGTCGAGGACATCGAGGCCGCAGAGGTC
GATCCGACCCTTCGTCCCGAACAACTCGACCTGGCCGCATTCGTCCGCCTGGCCAACCGGCTGGCCGAGCTG
CCAGGCAATCGTTAG
Translation:
MSELYQHRARKRFGQNFLHDAGVIHRILRAIHAREGQRLLEIGPGQGALTEGLLGSGARLDVIELDQDLIPL
LKLKFGLESRFSLHQGDALKFDFASLVESGEKLRVVGNLPYNISTPLIFHLLEHAPVIEDMHFMLQKEVVER
LAATPGGGDWGRLSIMVQYHCRVEHLFNVGPGAFNPPPKVDSAIVRLTPFAEPPHPARDPKLLERVVREAFN
QRRKTLRNTLKPLLSVEDIEAAEVDPTLRPEQLDLAAFVRLANRLAELPGNR*
AnnotationID:2953GeneID:2945
AnnotatorUID: diggins
Modification Date/Time: 2005-03-29 09:09:16
Gene Name:ksgA
Confidence Code:2
GeneProduct:rRNA (adenine-N6,N6)-dimethyltransferase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:dimethyladenosine transferase
Functional Category Confidence Code:5
COGs:COG0030,smart00650,pfam00398
Secondary Functional Category(ies):
EC Number:2.1.1.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66032.1|AE016232_5 (AE016775) dimethyladenosine transferase [Pseudomonas putida
           KT2440]
          Length = 267

 Score =  407 bits (1047), Expect = e-113
 Identities = 206/263 (78%), Positives = 226/263 (85%)

>gb|AAO54093.1| (AE016857) dimethyladenosine transferase [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 268

 Score =  407 bits (1045), Expect = e-113
 Identities = 203/263 (77%), Positives = 229/263 (87%)

>dbj|BAC58599.1| (AP005074) dimethyladenosine transferase [Vibrio parahaemolyticus]
          Length = 269

 Score =  285 bits (730), Expect = 1e-76
 Identities = 146/259 (56%), Positives = 186/259 (71%)








 
Structural Features:
COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation) 
[Translation, ribosomal structure and biogenesis]
CD-Length = 259 residues,  99.2% aligned
Score =  322 bits (828), Expect = 2e-89
Identities = 133/260 (51%), Positives = 170/260 (65%), Gaps = 4/260 (1%)

smart00650, rADc, Ribosomal RNA adenine dimethylases
CD-Length = 169 residues,  98.8% aligned
Score =  213 bits (545), Expect = 1e-56
Identities = 92/171 (53%), Positives = 114/171 (66%), Gaps = 4/171 (2%)

pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
CD-Length = 257 residues,  99.6% aligned
Score =  205 bits (522), Expect = 6e-54
Identities = 87/260 (33%), Positives = 137/260 (52%), Gaps = 7/260 (2%)







   
Genomic Context:






   
Comment:


















    ReferenceID:5893




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23035




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33879




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2945_cdd.html


    		




 
URL:

















    ReferenceID:35271




  
Author/Investigator(s):
        van Buul CP, van Knippenberg PH.





  
Title:
        Nucleotide sequence of the ksgA gene of Escherichia coli: comparison of methyltransferases effecting dimethylation of adenosine in ribosomal RNA.




  
PubMed:
        3905517


MedLine:
        




    
Source:
Gene. 1985;38(1-3):65-72.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3905517









           
Homologs By Global Alignment 

           

       



     
Gene ID:2945
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4767
                           PA0592_tr
                           translation of PA0592
                           268
                           99.62
                           99.99
                           0
                           1376.0
     

     
     
136544
                           gb|AAG03981.1|AE004495_5
                           (AE004495) rRNA (adenine-N6,N6)-dimethyltransferase [Pseudomonas aeruginosa PAO1]
                           268
                           99.62
                           99.99
                           0
                           1376.0
     

     
     
136545
                           gb|AAN66032.1|AE016232_5
                           (AE016775) dimethyladenosine transferase [Pseudomonas putida KT2440]
                           268
                           76.86
                           84.32
                           1
                           1040.0
     

     
     
136546
                           gb|AAO54093.1|
                           (AE016857) dimethyladenosine transferase [Pseudomonas syringae pv. tomato str. DC3000]
                           268
                           75.74
                           85.44
                           0
                           1037.0
     

     
     
136547
                           dbj|BAC58599.1|
                           (AP005074) dimethyladenosine transferase [Vibrio parahaemolyticus]
                           270
                           54.07
                           70.74
                           3
                           722.0
     

     






      

          
GC ORFID: 45947How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0592Glimmer Score: 

          
Start: 6465545Stop: 6464739

          
Length: 807


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA0592 translation of PA0592Homolog Bit Score 534.0

          
Other Homologs:  psyr_15may02_Scaffold6_revised_gene6755 (ORF: BLASTX 406.0), t_PA0592 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCGAGCTTTACCAACACCGCGCGCGCAAGCGCTTCGGCCAGAACTTCCTGCACGATGCCGGGGTGATT 
CACCGCATCCTCCGTGCCATCCATGCCCGCGAGGGTCAGCGCCTGCTGGAGATCGGCCCGGGCCAGGGTGCC 
CTGACCGAGGGACTGCTGGGCAGCGGCGCACGCCTGGACGTGATCGAGCTCGACCAGGACCTGATCCCCCTG 
TTGAAGCTGAAATTCGGCCTCGAGTCGCGCTTCAGCCTGCACCAGGGCGACGCCCTCAAGTTCGATTTCGCC 
TCGCTGGTGGAGAGCGGCGAGAAGTTGCGAGTGGTCGGCAACCTGCCCTACAACATCTCCACGCCACTGATC 
TTCCATCTGCTGGAGCACGCGCCGGTGATCGAGGACATGCACTTCATGCTGCAGAAGGAAGTGGTCGAGCGC 
CTGGCGGCCACGCCGGGCGGCGGGGACTGGGGCCGGCTCTCGATCATGGTCCAGTATCACTGTCGGGTGGAG 
CACCTGTTCAACGTCGGCCCCGGCGCGTTCAACCCGCCGCCCAAGGTCGACTCGGCCATCGTCCGCCTCACC 
CCCTTCGCCGAGCCGCCCCATCCGGCACGCGATCCGAAACTGCTCGAACGGGTGGTCCGCGAGGCCTTCAAC 
CAGCGCCGCAAGACCCTGCGCAACACCCTCAAGCCTCTCCTGAGCGTCGAGGACATCGAGGCCGCAGAGGTC 
GATCCGACCCTTCGTCCCGAACAACTCGACCTGGCCGCATTCGTCCGCCTGGCCAACCGGCTGGCCGAGCTG 
CCAGGCAATCGTTAG