ViewGene
Locus Name:
GeneID:
Location:

GeneID:4292
TrivialName: PA14_04390
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_04390
PAO1 Ortholog Locus:PA0336
Sequence Length:480
Protein Length:159
Start: 392268
Stop: 392747
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03725.1|AE004471_8 (AE004471) Nudix hydrolase YgdP [Pseudomonas aeruginosa PAO1]
Identities = 159/159 (100%), Positives = 159/159 (100%)
Sequence:
GTGATCGATTCCGATGGTTTTCGCCCGAATGTCGGCATCATTCTCGCCAACGAGGCGGGGCAGGTGCTGTGG
GCGCGGCGTATCAATCAGGAAGCCTGGCAGTTCCCGCAGGGAGGCATCAATGATCGCGAAACGCCGGAAGAG
GCGCTGTATCGCGAATTGAACGAAGAAGTCGGGCTGGAGGCCGGGGACGTGCGCATCCTGGCCTGCACCCGC
GGCTGGCTGCGCTACCGTTTGCCGCAGCGCCTGGTGCGGACCCACAGCCAGCCGCTGTGCATCGGCCAGAAG
CAGAAATGGTTCCTGCTGCGGCTGATGTCCGACGAGGCGCGCGTGCGCATGGATATCACCAGCAAGCCCGAG
TTCGACGGCTGGCGCTGGGTGAGTTACTGGTACCCCCTGGGACAGGTGGTGACCTTCAAGCGCGAGGTCTAC
CGCCGCGCCCTGAAGGAACTGGCCCCGCGCCTTCTGGCGCGGGACTGA
Translation:
MIDSDGFRPNVGIILANEAGQVLWARRINQEAWQFPQGGINDRETPEEALYRELNEEVGLEAGDVRILACTR
GWLRYRLPQRLVRTHSQPLCIGQKQKWFLLRLMSDEARVRMDITSKPEFDGWRWVSYWYPLGQVVTFKREVY
RRALKELAPRLLARD*
AnnotationID:4298GeneID:4292
AnnotatorUID: diggins
Modification Date/Time: 2005-03-24 15:03:29
Gene Name:ygdP
Confidence Code:2
GeneProduct:di)nucleoside polyphosphate hydrolase
Cell Localization:()
Synonyms:nudH
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(18) Nucleotide biosynthesis and metabolism
Alternate Gene Product Name:mutT/nudix family protein
Functional Category Confidence Code:5
COGs:pfam00293
Secondary Functional Category(ies):
EC Number:3.6.1.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58711.1| (AE016875) mutT/nudix family protein [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 159

 Score =  305 bits (782), Expect = 5e-83
 Identities = 143/159 (89%), Positives = 152/159 (95%)

>gb|AAN70711.1|AE016714_9 (AE016793) (di)nucleoside polyphosphate hydrolase, putative
           [Pseudomonas putida KT2440]
          Length = 159

 Score =  304 bits (778), Expect = 1e-82
 Identities = 143/159 (89%), Positives = 149/159 (93%)

>gb|AAC75869.1| (AE000366) putative invasion protein [Escherichia coli K12]
          Length = 176

 Score =  230 bits (587), Expect = 2e-60
 Identities = 103/152 (67%), Positives = 125/152 (82%)








 
Structural Features:
pfam00293, NUDIX, NUDIX domain.
CD-Length = 133 residues,  99.2% aligned
Score = 68.3 bits (166), Expect = 4e-13
Identities = 49/148 (33%), Positives = 63/148 (42%), Gaps = 21/148 (14%)








   
Genomic Context:






   
Comment:


















    ReferenceID:15062




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25728




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33679




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4292_cdd.html


    		




 
URL:

















    ReferenceID:35422




  
Author/Investigator(s):
        Bessman MJ, Walsh JD, Dunn CA, Swaminathan J, Weldon JE, Shen J.





  
Title:
        The gene ygdP, associated with the invasiveness of Escherichia coli K1, designates a Nudix hydrolase, Orf176, active on adenosine (5')-pentaphospho-(5')-adenosine (Ap5A).




  
PubMed:
        11479323


MedLine:
        




    
Source:
J Biol Chem. 2001 Oct 12;276(41):37834-8. Epub 2001 Jul 30.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11479323









           
Homologs By Global Alignment 

           

       



     
Gene ID:4292
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6604
                           PA0336_tr
                           translation of PA0336
                           159
                           99.99
                           99.99
                           0
                           850.0
     

     
     
178380
                           gb|AAG03725.1|AE004471_8
                           (AE004471) Nudix hydrolase YgdP [Pseudomonas aeruginosa PAO1]
                           159
                           99.37
                           99.99
                           0
                           847.0
     

     
     
178381
                           gb|AAD22458.1|AF116285_1
                           (AF116285) invasion protein homolog [Pseudomonas aeruginosa]
                           159
                           99.37
                           99.99
                           0
                           847.0
     

     
     
178382
                           gb|AAO58711.1|
                           (AE016875) mutT/nudix family protein [Pseudomonas syringae pv. tomato str. DC3000]
                           159
                           89.30
                           95.59
                           0
                           778.0
     

     
     
178383
                           gb|AAN70711.1|AE016714_9
                           (AE016793) (di)nucleoside polyphosphate hydrolase, putative [Pseudomonas putida KT2440]
                           159
                           89.30
                           93.71
                           0
                           774.0
     

     






      

          
GC ORFID: 47294How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0336Glimmer Score: 

          
Start: 6193610Stop: 6194089

          
Length: 480


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0336 translation of PA0336Homolog Bit Score 332.0

          
Other Homologs:  psyr_15may02_Scaffold6_revised_gene6531 (ORF: BLASTX 305.0), t_PA0336 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGATCGATTCCGATGGTTTTCGCCCGAATGTCGGCATCATTCTCGCCAACGAGGCGGGGCAGGTGCTGTGG 
GCGCGGCGTATCAATCAGGAAGCCTGGCAGTTCCCGCAGGGAGGCATCAATGATCGCGAAACGCCGGAAGAG 
GCGCTGTATCGCGAATTGAACGAAGAAGTCGGGCTGGAGGCCGGGGACGTGCGCATCCTGGCCTGCACCCGC 
GGCTGGCTGCGCTACCGTTTGCCGCAGCGCCTGGTGCGGACCCACAGCCAGCCGCTGTGCATCGGCCAGAAG 
CAGAAATGGTTCCTGCTGCGGCTGATGTCCGACGAGGCGCGCGTGCGCATGGATATCACCAGCAAGCCCGAG 
TTCGACGGCTGGCGCTGGGTGAGTTACTGGTACCCCCTGGGACAGGTGGTGACCTTCAAGCGCGAGGTCTAC 
CGCCGCGCCCTGAAGGAACTGGCCCCGCGCCTTCTGGCGCGGGACTGA