ViewGene
Locus Name:
GeneID:
Location:

GeneID:4259
TrivialName: PA14_00200
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_00200
PAO1 Ortholog Locus:PA0019
Sequence Length:507
Protein Length:168
Start: 21594
Stop: 21088
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03409.1|AE004441_10 (AE004441) polypeptide deformylase [Pseudomonas aeruginosa PAO1]
Identities = 167/168 (99%), Positives = 168/168 (100%)
Sequence:
ATGGCCATCCTGAACATTCTCGAATTCCCCGATCCGCGCCTGCGGACCATCGCCAAACCGGTGGAGGTGGTC
GACGACGCGGTGCGCCAGCTGATCGACGACATGTTCGAAACCATGTACGAAGCCCCGGGCATCGGCCTCGCC
GCGACCCAGGTGAACGTGCACAAGCGCATCGTGGTCATGGACCTCAGCGAAGACAAGTCCGAGCCGAGGGTA
TTCATCAACCCCGAGTTCGAACCGCTGACCGAGGAAATGGACCAGTACCAGGAAGGCTGCCTGTCGGTACCC
GGCTTCTACGAGAACGTGGACCGACCGCAGAAGGTCCGGATCAAGGCCCTCGACCGCGACGGCAACCCCTTC
GAGGAGGTCGCCGAAGGCCTGCTGGCGGTATGCATCCAGCACGAATGCGACCACCTCAACGGCAAGCTGTTC
GTCGACTACCTGTCCACCCTCAAGCGCGACCGCATCCGCAAGAAGCTGGAAAAGCAGCATCGACAGCAGGCG
TGA
Translation:
MAILNILEFPDPRLRTIAKPVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMDLSEDKSEPRV
FINPEFEPLTEEMDQYQEGCLSVPGFYENVDRPQKVRIKALDRDGNPFEEVAEGLLAVCIQHECDHLNGKLF
VDYLSTLKRDRIRKKLEKQHRQQA*
AnnotationID:4265GeneID:4259
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 11:11:03
Gene Name:def
Confidence Code:2
GeneProduct:polypeptide deformylase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:N-formylmethionyl-tRNA deformylase
Functional Category Confidence Code:5
COGs:COG0242,pfam01327
Secondary Functional Category(ies):
EC Number:3.5.1.88
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53731.1| (AE016856) polypeptide deformylase [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 168

 Score =  301 bits (771), Expect = 1e-81
 Identities = 144/168 (85%), Positives = 156/168 (92%)

>gb|AAN65702.1|AE016196_13 (AE016774) polypeptide deformylase [Pseudomonas putida KT2440]
          Length = 168

 Score =  291 bits (744), Expect = 1e-78
 Identities = 142/168 (84%), Positives = 152/168 (90%)

>emb|CAE30745.1| (BX640437) polypeptide deformylase [Bordetella bronchiseptica]
          Length = 170

 Score =  213 bits (543), Expect = 3e-55
 Identities = 99/166 (59%), Positives = 134/166 (80%)








 
Structural Features:
COG0242, Def, N-formylmethionyl-tRNA deformylase 
[Translation, ribosomal structure and biogenesis] 
CD-Length = 168 residues, 100.0% aligned
Score =  235 bits (600), Expect = 3e-63
Identities = 100/168 (59%), Positives = 123/168 (73%), Gaps = 3/168 (1%)

pfam01327, Pep_deformylase, Polypeptide deformylase.
CD-Length = 154 residues,  99.4% aligned
Score =  178 bits (452), Expect = 4e-46
Identities = 74/153 (48%), Positives = 96/153 (62%), Gaps = 2/153 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:8519




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25661




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33383




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4259_cdd.html


    		




 
URL:

















    ReferenceID:35523




  
Author/Investigator(s):
        Mazel D, Pochet S, Marliere P.





  
Title:
        Genetic characterization of polypeptide deformylase, a distinctive enzyme of eubacterial translation.




  
PubMed:
        8112305


MedLine:
        




    
Source:
EMBO J. 1994 Feb 15;13(4):914-23.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8112305









           
Homologs By Global Alignment 

           

       



     
Gene ID:4259
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6555
                           PA0019_tr
                           translation of PA0019
                           168
                           99.40
                           99.99
                           0
                           868.0
     

     
     
177587
                           gb|AAG03409.1|AE004441_10
                           (AE004441) polypeptide deformylase [Pseudomonas aeruginosa PAO1]
                           168
                           99.40
                           99.99
                           0
                           868.0
     

     
     
177588
                           gb|AAO53731.1|
                           (AE016856) polypeptide deformylase [Pseudomonas syringae pv. tomato str. DC3000]
                           168
                           85.71
                           92.85
                           0
                           771.0
     

     
     
177589
                           gb|AAN65702.1|AE016196_13
                           (AE016774) polypeptide deformylase [Pseudomonas putida KT2440]
                           168
                           84.52
                           90.47
                           0
                           744.0
     

     
     
177598
                           gb|AAF83736.1|AE003931_13
                           (AE003931) polypeptide deformylase [Xylella fastidiosa 9a5c]
                           172
                           62.79
                           77.32
                           6
                           527.0
     

     






      

          
GC ORFID: 47261How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0019Glimmer Score: 

          
Start: 5822931Stop: 5822425

          
Length: 507


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0019 translation of PA0019Homolog Bit Score 338.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene4098 (ORF: BLASTX 304.0), psyr_15may02_Scaffold5_revised_gene6367 (ORF: BLASTX 108.0), t_PA0019 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCATCCTGAACATTCTCGAATTCCCCGATCCGCGCCTGCGGACCATCGCCAAACCGGTGGAGGTGGTC 
GACGACGCGGTGCGCCAGCTGATCGACGACATGTTCGAAACCATGTACGAAGCCCCGGGCATCGGCCTCGCC 
GCGACCCAGGTGAACGTGCACAAGCGCATCGTGGTCATGGACCTCAGCGAAGACAAGTCCGAGCCGAGGGTA 
TTCATCAACCCCGAGTTCGAACCGCTGACCGAGGAAATGGACCAGTACCAGGAAGGCTGCCTGTCGGTACCC 
GGCTTCTACGAGAACGTGGACCGACCGCAGAAGGTCCGGATCAAGGCCCTCGACCGCGACGGCAACCCCTTC 
GAGGAGGTCGCCGAAGGCCTGCTGGCGGTATGCATCCAGCACGAATGCGACCACCTCAACGGCAAGCTGTTC 
GTCGACTACCTGTCCACCCTCAAGCGCGACCGCATCCGCAAGAAGCTGGAAAAGCAGCATCGACAGCAGGCG 
TGA