ViewGene
Locus Name:
GeneID:
Location:

GeneID:2284
TrivialName: PA14_65320
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_65320
PAO1 Ortholog Locus:PA4945
Sequence Length:972
Protein Length:323
Start: 5821112
Stop: 5820141
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08330.1|AE004907_8 (AE004907) delta 2-isopentenylpyrophosphate transferase [Pseudomonas aeruginosa PAO1]
Identities = 321/323 (99%), Positives = 322/323 (99%)
Sequence:
ATGTCTTCCCTGCCTCCCGCCATCTTTCTCATGGGGCCGACCGCCGCCGGCAAGACCGACCTGGCGATGGCG
CTGGCCGATGCGCTGCCCTGCGAGCTGATCAGCGTCGACTCGGCGCTGATCTACCGCGGCATGGATATCGGT
ACGGCCAAGCCTTCCCGGGAGCTGCTGGCGCGCTATCCGCACCGCCTGATCGATATCCGCGATCCGGCGGAG
AGCTATTCGGCCGCGGAATTCCGCGCCGACGCCCTGGCGGCGATGGCCGAGGCCACCGCGCGCGGCAGGATT
CCCCTGCTGGTGGGGGGCACCATGCTCTATTACAAGGCGTTGCTCGAGGGCCTGGCCGACATGCCCGGCGCC
GATCCCGAGGTGCGCGCGGCGATCGAGGCCGAGGCCCTGGCCGAAGGTTGGGAGGCGCTGCACCGGCAACTC
GCCGAGGTCGACCCGGAGTCGGCTGCGCGCATCCACCCCAACGACCCGCAGCGACTGATGCGGGCGCTCGAG
GTGTATCGCCTCGGCGGGGTGTCGATGAGCGACCTGCGTCGCCGGCAAAGCGCTGAAAAGGCGGATTTTGAC
GCGTCAGGCAGGAATCAATTGCCGTATACTGTCGCTCAGCTGGCGATTGCTCCCGAGCAGCGCCAGGTGTTG
CACGCGCGGATTGCGCAGCGTTTTCGCCAGATGCTGGAACAGGGTTTCATCGCCGAGGTCGAAGCACTGCAT
GCCAGAAGTGACTTGCATGCAGGATTACCGTCTATTAGAGCCGTGGGTTACCGTCAGGTGTGGGATTACCTG
GATGGCAAGCTGTCCTACGCTGAAATGACCGAACGCGGCATCATCGCTACCCGCCAGTTGGCCAAGCGCCAG
TTCACCTGGCTGCGAAGCTGGAGCCATCTACACTGGATGGACAGCCTAGCAGGTGACAATCTGCCGCGTGCC
TTGAAATACCTGAAAACGGTCTCCATATTGGCCTGA
Translation:
MSSLPPAIFLMGPTAAGKTDLAMALADALPCELISVDSALIYRGMDIGTAKPSRELLARYPHRLIDIRDPAE
SYSAAEFRADALAAMAEATARGRIPLLVGGTMLYYKALLEGLADMPGADPEVRAAIEAEALAEGWEALHRQL
AEVDPESAARIHPNDPQRLMRALEVYRLGGVSMSDLRRRQSAEKADFDASGRNQLPYTVAQLAIAPEQRQVL
HARIAQRFRQMLEQGFIAEVEALHARSDLHAGLPSIRAVGYRQVWDYLDGKLSYAEMTERGIIATRQLAKRQ
FTWLRSWSHLHWMDSLAGDNLPRALKYLKTVSILA*
AnnotationID:2292GeneID:2284
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 07:07:37
Gene Name:miaA
Confidence Code:2
GeneProduct:delta 2-isopentenylpyrophosphate transferase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0324,pfam01715
Secondary Functional Category(ies):
EC Number:2.5.1.8
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70462.1|AE016688_1 (AE016792) tRNA delta(2)-isopentenylpyrophosphate transferase
           [Pseudomonas putida KT2440]
          Length = 323

 Score =  481 bits (1237), Expect = e-135
 Identities = 245/323 (75%), Positives = 269/323 (83%)

>gb|AAO58371.1| (AE016873) tRNA delta(2)-isopentenylpyrophosphate transferase
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 323

 Score =  480 bits (1235), Expect = e-135
 Identities = 242/323 (74%), Positives = 277/323 (85%)

>gb|AAA97067.1| (U14003) tRNA delta-2-isopentenylpyrophosphate (IPP) transferase
           [Escherichia coli]
          Length = 316

 Score =  390 bits (1003), Expect = e-108
 Identities = 197/302 (65%), Positives = 233/302 (77%), Gaps = 11/302 (3%)






 
Structural Features:
COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase 
[Translation, ribosomal structure and biogenesis]
CD-Length = 308 residues, 100.0% aligned
Score =  363 bits (932), Expect = 2e-101
Identities = 169/320 (52%), Positives = 220/320 (68%), Gaps = 12/320 (3%)

pfam01715, IPPT, IPP transferase. 
This is a family of IPP transferases EC:2.5.1.8 also known as 
tRNA delta(2)-isopentenylpyrophosphate transferase.
CD-Length = 253 residues,  99.6% aligned
Score =  316 bits (812), Expect = 2e-87
Identities = 141/266 (53%), Positives = 183/266 (68%), Gaps = 13/266 (4%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4571




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21717




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35110




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2284_cdd.html


    		




 
URL:

















    ReferenceID:35902




  
Author/Investigator(s):
        Connolly DM, Winkler ME.





  
Title:
        Genetic and physiological relationships among the miaA gene, 2-methylthio-N6-(delta 2-isopentenyl)-adenosine tRNA modification, and spontaneous mutagenesis in Escherichia coli K-12.




  
PubMed:
        2656644


MedLine:
        




    
Source:
J Bacteriol. 1989 Jun;171(6):3233-46.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2656644









           
Homologs By Global Alignment 

           

       



     
Gene ID:2284
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3883
                           PA4945_tr
                           translation of PA4945
                           323
                           99.38
                           99.69
                           0
                           1626.0
     

     
     
118597
                           gb|AAG08330.1|AE004907_8
                           (AE004907) delta 2-isopentenylpyrophosphate transferase [Pseudomonas aeruginosa PAO1]
                           323
                           99.38
                           99.69
                           0
                           1626.0
     

     
     
118598
                           gb|AAN70462.1|AE016688_1
                           (AE016792) tRNA delta(2)-isopentenylpyrophosphate transferase [Pseudomonas putida KT2440]
                           323
                           75.85
                           83.28
                           0
                           1237.0
     

     
     
118600
                           gb|AAB69443.1|
                           (AF016312) tRNA:isopentenyladenine transferase [Pseudomonas putida]
                           323
                           75.85
                           83.28
                           1
                           1229.0
     

     
     
118599
                           gb|AAO58371.1|
                           (AE016873) tRNA delta(2)-isopentenylpyrophosphate transferase [Pseudomonas syringae pv. tomato str. DC3000]
                           323
                           74.92
                           85.75
                           0
                           1235.0
     

     






      

          
GC ORFID: 45286How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4945Glimmer Score: 

          
Start: 5084793Stop: 5083822

          
Length: 972


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4945 translation of PA4945Homolog Bit Score 630.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3429 (ORF: BLASTX 486.0), t_PA4945 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCTTCCCTGCCTCCCGCCATCTTTCTCATGGGGCCGACCGCCGCCGGCAAGACCGACCTGGCGATGGCG 
CTGGCCGATGCGCTGCCCTGCGAGCTGATCAGCGTCGACTCGGCGCTGATCTACCGCGGCATGGATATCGGT 
ACGGCCAAGCCTTCCCGGGAGCTGCTGGCGCGCTATCCGCACCGCCTGATCGATATCCGCGATCCGGCGGAG 
AGCTATTCGGCCGCGGAATTCCGCGCCGACGCCCTGGCGGCGATGGCCGAGGCCACCGCGCGCGGCAGGATT 
CCCCTGCTGGTGGGGGGCACCATGCTCTATTACAAGGCGTTGCTCGAGGGCCTGGCCGACATGCCCGGCGCC 
GATCCCGAGGTGCGCGCGGCGATCGAGGCCGAGGCCCTGGCCGAAGGTTGGGAGGCGCTGCACCGGCAACTC 
GCCGAGGTCGACCCGGAGTCGGCTGCGCGCATCCACCCCAACGACCCGCAGCGACTGATGCGGGCGCTCGAG 
GTGTATCGCCTCGGCGGGGTGTCGATGAGCGACCTGCGTCGCCGGCAAAGCGCTGAAAAGGCGGATTTTGAC 
GCGTCAGGCAGGAATCAATTGCCGTATACTGTCGCTCAGCTGGCGATTGCTCCCGAGCAGCGCCAGGTGTTG 
CACGCGCGGATTGCGCAGCGTTTTCGCCAGATGCTGGAACAGGGTTTCATCGCCGAGGTCGAAGCACTGCAT 
GCCAGAAGTGACTTGCATGCAGGATTACCGTCTATTAGAGCCGTGGGTTACCGTCAGGTGTGGGATTACCTG 
GATGGCAAGCTGTCCTACGCTGAAATGACCGAACGCGGCATCATCGCTACCCGCCAGTTGGCCAAGCGCCAG 
TTCACCTGGCTGCGAAGCTGGAGCCATCTACACTGGATGGACAGCCTAGCAGGTGACAATCTGCCGCGTGCC 
TTGAAATACCTGAAAACGGTCTCCATATTGGCCTGA