ViewGene
Locus Name:
GeneID:
Location:

GeneID:2195
TrivialName: PA14_23640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23640
PAO1 Ortholog Locus:PA3129
Sequence Length:960
Protein Length:319
Start: 2056424
Stop: 2057383
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06517.1|AE004737_3 (AE004737) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 318/319 (99%), Positives = 318/319 (99%)
Sequence:
GTGCAAATCGCCCTGGCGCCGATGGAAGGTCTGGTGGATGAAATCCTCCGCGACGTGCTGACCCGCGTCGGC
GGCATCGATTGGTGCGTCACCGAATTCATCCGCATCACCGATCGCCTACTGCCGGCCACGGCTTTCCACAAG
CTGGCGCCGGAGCTGCGCGACGGCAGCCGGACCCGCGCCGGGACGCCGATGCGTGTGCAGTTGCTCGGCTCC
GATCCTGCGTGCCTGGCGGATAACGCCGCGTTCGCCTGTGAGCTGGGTGCCCCGGTGATCGACCTGAACTTC
GGTTGTCCGGCCAAGACCGTGAACCGCTCGCGCGGCGGCGCGGTATTGCTCAAGGAGCCGGAGCTGATGCAC
GACATCGTCGCCGCCGTGCGTCGCGCGGTGCCGAGCGAGATTGCGGTGACCTCGAAGATGCGCCTGGGCTAC
GACAGTCCCGACGGCGCCCTGGATTGCGCGCGGGCCCTGGCCGACGGCGGCTCGGCCCATGTAGTGGTGCAT
GCCCGGACCAAGGTCGATGGCTACAGGCCGCCGGCGCACTGGGAGTGGGTGGCGCGGGTGGCCGAGGCGGTG
CGCGTGCCGGTGTTCGCCAATGGCGAAGTGTGGACGCTCGACGACTACCTGCGTTGTCGCGAGGTCAGCGGG
GTGGAGGACATCATGCTCGGTCGCGGCCTGGTCTCGCGTCCTGGCCTGGCTCGGCAGATCGCCGCCTGGCGC
GATGGCGGCGAAATCCACGAGATGCCCTGGAGCGAGCTGTTGCCGCTGCTGCGCGACTTCTGGCTACAGGCC
CGGCGCAAGCTCGCCCCGCGCTATGCCCCGGGGCGTCTCAAGCAGTGGCTGGGCATGCTCACGCGCACCTAT
CCCGAAGCCGTCGAGCTGTTCGCGCGGATTCGCCGGGAAAGCGATTGCGAAACCATCGACCGGTTGTTGCAG
GTGTCGTTCAGCCAGGCGGCCTAG
Translation:
MQIALAPMEGLVDEILRDVLTRVGGIDWCVTEFIRITDRLLPATAFHKLAPELRDGSRTRAGTPMRVQLLGS
DPACLADNAAFACELGAPVIDLNFGCPAKTVNRSRGGAVLLKEPELMHDIVAAVRRAVPSEIAVTSKMRLGY
DSPDGALDCARALADGGSAHVVVHARTKVDGYRPPAHWEWVARVAEAVRVPVFANGEVWTLDDYLRCREVSG
VEDIMLGRGLVSRPGLARQIAAWRDGGEIHEMPWSELLPLLRDFWLQARRKLAPRYAPGRLKQWLGMLTRTY
PEAVELFARIRRESDCETIDRLLQVSFSQAA*
AnnotationID:2203GeneID:2195
AnnotatorUID: diggins
Modification Date/Time: 2005-04-13 08:08:37
Gene Name:
Confidence Code:3
GeneProduct:putative tRNA-dihydrouridine synthase
Cell Localization:()
Synonyms:PA3129
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0042
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67596.1|AE016389_4 (AE016781) NifR3/Smm1 family protein [Pseudomonas putida KT2440]
          Length = 323

 Score =  513 bits (1322), Expect = e-145
 Identities = 248/313 (79%), Positives = 275/313 (87%)

>gb|AAO55686.1| (AE016863) dihydrouridine synthase family protein [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 317

 Score =  462 bits (1190), Expect = e-130
 Identities = 218/314 (69%), Positives = 264/314 (84%)

>gb|AAF41402.1| (AE002451) NifR3/SMM1 family protein [Neisseria meningitidis MC58]
          Length = 333

 Score =  308 bits (790), Expect = 2e-83
 Identities = 149/311 (47%), Positives = 215/311 (69%), Gaps = 1/311 (0%)








 
Structural Features:
COG0042, COG0042, tRNA-dihydrouridine synthase 
[Translation, ribosomal structure and biogenesis]
CD-Length = 323 residues,  96.0% aligned
Score =  263 bits (674), Expect = 2e-71
Identities = 118/319 (36%), Positives = 170/319 (53%), Gaps = 11/319 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14533




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21539




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32392




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2195_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2195
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3741
                           PA3129_tr
                           translation of PA3129
                           319
                           99.68
                           99.68
                           0
                           1657.0
     

     
     
115441
                           gb|AAG06517.1|AE004737_3
                           (AE004737) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           319
                           99.37
                           99.68
                           0
                           1654.0
     

     
     
115442
                           gb|AAK11471.1|AF323438_3
                           (AF323438) unknown [Pseudomonas alcaligenes]
                           319
                           79.31
                           88.08
                           4
                           1346.0
     

     
     
115443
                           gb|AAN67596.1|AE016389_4
                           (AE016781) NifR3/Smm1 family protein [Pseudomonas putida KT2440]
                           324
                           76.54
                           85.49
                           6
                           1313.0
     

     
     
115444
                           gb|AAO55686.1|
                           (AE016863) dihydrouridine synthase family protein [Pseudomonas syringae pv. tomato str. DC3000]
                           319
                           68.02
                           82.75
                           2
                           1184.0
     

     






      

          
GC ORFID: 45197How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3129Glimmer Score: 

          
Start: 2897507Stop: 2896548

          
Length: 960


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA3129 translation of PA3129Homolog Bit Score 642.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene965 (ORF: BLASTX 452.0), t_PA3129 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGCAAATCGCCCTGGCGCCGATGGAAGGTCTGGTGGATGAAATCCTCCGCGACGTGCTGACCCGCGTCGGC 
GGCATCGATTGGTGCGTCACCGAATTCATCCGCATCACCGATCGCCTACTGCCGGCCACGGCTTTCCACAAG 
CTGGCGCCGGAGCTGCGCGACGGCAGCCGGACCCGCGCCGGGACGCCGATGCGTGTGCAGTTGCTCGGCTCC 
GATCCTGCGTGCCTGGCGGATAACGCCGCGTTCGCCTGTGAGCTGGGTGCCCCGGTGATCGACCTGAACTTC 
GGTTGTCCGGCCAAGACCGTGAACCGCTCGCGCGGCGGCGCGGTATTGCTCAAGGAGCCGGAGCTGATGCAC 
GACATCGTCGCCGCCGTGCGTCGCGCGGTGCCGAGCGAGATTGCGGTGACCTCGAAGATGCGCCTGGGCTAC 
GACAGTCCCGACGGCGCCCTGGATTGCGCGCGGGCCCTGGCCGACGGCGGCTCGGCCCATGTAGTGGTGCAT 
GCCCGGACCAAGGTCGATGGCTACAGGCCGCCGGCGCACTGGGAGTGGGTGGCGCGGGTGGCCGAGGCGGTG 
CGCGTGCCGGTGTTCGCCAATGGCGAAGTGTGGACGCTCGACGACTACCTGCGTTGTCGCGAGGTCAGCGGG 
GTGGAGGACATCATGCTCGGTCGCGGCCTGGTCTCGCGTCCTGGCCTGGCTCGGCAGATCGCCGCCTGGCGC 
GATGGCGGCGAAATCCACGAGATGCCCTGGAGCGAGCTGTTGCCGCTGCTGCGCGACTTCTGGCTACAGGCC 
CGGCGCAAGCTCGCCCCGCGCTATGCCCCGGGGCGTCTCAAGCAGTGGCTGGGCATGCTCACGCGCACCTAT 
CCCGAAGCCGTCGAGCTGTTCGCGCGGATTCGCCGGGAAAGCGATTGCGAAACCATCGACCGGTTGTTGCAG 
GTGTCGTTCAGCCAGGCGGCCTAG