ViewGene
Locus Name:
GeneID:
Location:

GeneID:3865
TrivialName: PA14_41430
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_41430
PAO1 Ortholog Locus:PA1790
Sequence Length:624
Protein Length:207
Start: 3695091
Stop: 3694468
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05179.1|AE004605_1 (AE004605) hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 204/207 (98%), Positives = 204/207 (98%)
Sequence:
GTGACCTGCGCCATGTTGCCCGAGATCGACCAATTCCTCGCCTGTTCCACTCCCGCCGCCTGGGTTGAGGCG
GCCCTGGAGCGCCAGGACGTCATGCTGCTGGACCACAAGGCCTGCGAGATGAAGGCCGCGGCGACGGCGATG
CAACTGATCGGCAAGTACTCCGGCCGCCTGGACCTGGTGAACAAGATGAGCCGCCTGGCGCGCGAGGAGCTG
CGCCACTTCGAGCAGGTGCTGGCGATCCTGAAGAAACGCGGCATCCCGGTGGTCAATGTCAGCGCCTCCCGC
TACGCCTCGGCGCTGCGCGACCTGGTGCGCAAGCAGGAGCCGCAGCGGCTGACTGATACGCTGGTGGTCGGC
GCCTTCATCGAGGCGCGTTCCTGCGAGCGCTTCGCCGCCCTGGTGCCGCACCTGGACGCGGAGCTGGCGAAA
TTCTACGGCGGTTTGCTGAAGTCCGAGTCGCGGCATTTCCAGGACTACCTGAAGCTGGCCTACCAGTACGGC
GACGAGGCCGACGTGGAGCGGACGATCGAGGTGGTGCGGGCCAAGGAGGCCGAGCTGATCAGCAGTCCGGAC
AACGAATTCCGCTTCCACAGCGGCCACCCGGTGGACCTGGTGGCCTGA
Translation:
MTCAMLPEIDQFLACSTPAAWVEAALERQDVMLLDHKACEMKAAATAMQLIGKYSGRLDLVNKMSRLAREEL
RHFEQVLAILKKRGIPVVNVSASRYASALRDLVRKQEPQRLTDTLVVGAFIEARSCERFAALVPHLDAELAK
FYGGLLKSESRHFQDYLKLAYQYGDEADVERTIEVVRAKEAELISSPDNEFRFHSGHPVDLVA*
AnnotationID:3872GeneID:3865
AnnotatorUID: diggins
Modification Date/Time: 2005-06-03 08:08:02
Gene Name:
Confidence Code:3
GeneProduct:putative tRNA-(ms(2)io(6)a)-hydroxylase
Cell Localization:()
Synonyms:miaE
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(18) Nucleotide biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG4445,pfam06175
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:
2-methylthio-cis-ribozeatin biosynthesis; step 3
Homology:
>gb|AAN67801.1|AE016411_6 (AE016782) tRNA-(ms(2)io(6)a)-hydroxylase, putative [Pseudomonas
           putida KT2440]
          Length = 205

 Score =  280 bits (715), Expect = 5e-75
 Identities = 138/204 (67%), Positives = 162/204 (79%)

>dbj|BAC59362.1| (AP005076) tRNA-(MS[2]IO[6]A)-hydroxylase [Vibrio parahaemolyticus]
          Length = 256

 Score =  180 bits (456), Expect = 6e-45
 Identities = 106/247 (42%), Positives = 140/247 (56%), Gaps = 50/247 (20%)
Structural Features:
COG4445, MiaE, Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA 
[Nucleotide transport and metabolism / 
Translation, ribosomal structure and biogenesis]
CD-Length = 203 residues, 100.0% aligned
Score =  318 bits (816), Expect = 3e-88
Identities = 133/203 (65%), Positives = 149/203 (73%)

pfam06175, MiaE, tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE). 
CD-Length = 199 residues,  99.5% aligned
Score =  288 bits (739), Expect = 3e-79
Identities = 129/198 (65%), Positives = 146/198 (73%), Gaps = 3/198 (1%)
Genomic Context:






   
Comment:


















    ReferenceID:14947




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24875




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37100




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3865_cdd.html


    		




 
URL:

















    ReferenceID:38184




  
Author/Investigator(s):
        Persson BC, Bjork GR.





  
Title:
        Isolation of the gene (miaE) encoding the hydroxylase involved in the synthesis of 2-methylthio-cis-ribozeatin in tRNA of Salmonella typhimurium and characterization of mutants.




  
PubMed:
        8253666


MedLine:
        




    
Source:
J Bacteriol. 1993 Dec;175(24):7776-85.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8253666









           
Homologs By Global Alignment 

           

       



     
Gene ID:3865
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6093
                           PA1790_tr
                           translation of PA1790
                           207
                           98.55
                           98.55
                           0
                           1020.0
     

     
     
169856
                           gb|AAG05179.1|AE004605_1
                           (AE004605) hypothetical protein PA1790 [Pseudomonas aeruginosa PAO1]
                           207
                           98.06
                           98.55
                           0
                           1017.0
     

     
     
169857
                           gb|AAN67801.1|AE016411_6
                           (AE016782) tRNA-(ms(2)io(6)a)-hydroxylase, putative [Pseudomonas putida KT2440]
                           207
                           66.66
                           78.26
                           2
                           714.0
     

     
     
169858
                           gb|AAO57219.1|
                           (AE016869) conserved hypothetical protein [Pseudomonas syringae pv. tomato str. DC3000]
                           209
                           63.15
                           76.55
                           4
                           693.0
     

     
     
169859
                           dbj|BAC59362.1|
                           (AP005076) tRNA-(MS[2]IO[6]A)-hydroxylase [Vibrio parahaemolyticus]
                           261
                           40.99
                           52.49
                           59
                           480.0
     

     






      

          
GC ORFID: 46867How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1790Glimmer Score: 

          
Start: 1258818Stop: 1259441

          
Length: 624


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1790 translation of PA1790Homolog Bit Score 397.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene756 (ORF: BLASTX 274.0), t_PA1790 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGACCTGCGCCATGTTGCCCGAGATCGACCAATTCCTCGCCTGTTCCACTCCCGCCGCCTGGGTTGAGGCG 
GCCCTGGAGCGCCAGGACGTCATGCTGCTGGACCACAAGGCCTGCGAGATGAAGGCCGCGGCGACGGCGATG 
CAACTGATCGGCAAGTACTCCGGCCGCCTGGACCTGGTGAACAAGATGAGCCGCCTGGCGCGCGAGGAGCTG 
CGCCACTTCGAGCAGGTGCTGGCGATCCTGAAGAAACGCGGCATCCCGGTGGTCAATGTCAGCGCCTCCCGC 
TACGCCTCGGCGCTGCGCGACCTGGTGCGCAAGCAGGAGCCGCAGCGGCTGACTGATACGCTGGTGGTCGGC 
GCCTTCATCGAGGCGCGTTCCTGCGAGCGCTTCGCCGCCCTGGTGCCGCACCTGGACGCGGAGCTGGCGAAA 
TTCTACGGCGGTTTGCTGAAGTCCGAGTCGCGGCATTTCCAGGACTACCTGAAGCTGGCCTACCAGTACGGC 
GACGAGGCCGACGTGGAGCGGACGATCGAGGTGGTGCGGGCCAAGGAGGCCGAGCTGATCAGCAGTCCGGAC 
AACGAATTCCGCTTCCACAGCGGCCACCCGGTGGACCTGGTGGCCTGA