ViewGene
Locus Name:
GeneID:
Location:

GeneID:5933
TrivialName: PA14_35970
AnnotatorUID: ericdeziel
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_35970
PAO1 Ortholog Locus:
Sequence Length:1173
Protein Length:390
Start: 3202104
Stop: 3200932
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAK01498.1| (AF241171) putative acyl-CoA dehydrogenase [Pseudomonas aeruginosa]
Identities = 386/389 (99%), Positives = 388/389 (99%) to gene #8 of PAGI-1 island.
Sequence:
ATGAACTTCACCCTCCCGGACGAACTGCTCGCCTTGCAGGCCAAGACCCGAGACTTCATCGCCGAACAGGTC
ATCCCGCTCGAGAACGACCCCCGCCAGGACAGCCACGGCCCCAGCGACGCCCTGCGCCAGGATCTGGTGGCC
CGCGCCCGCGCGGCCGGCTTGCTGACGCCCCACGCCAGCCGCGAAATGGGTGGCCTGGCGCTGAGCCACGTG
GCCAAGGCGATCGTCTTCGAAGAGGCCGGCTACTCGCCGCTGGGCCCGGTGGCGCTGAACATCCATGCCCCG
GACGAAGGCAACATCCACCTGATGGACGTGGTCGCCACCGAGGCGCAGAAAGACCGCTGGTTGCGCCCGCTG
GTCCAGGGCCATGCCCGTTCCTGCTTCGCCATGACCGAGCCTGCGCCAGGCTCCGGCTCGGACCCTTCGATG
CTGCGCACCACCGCCATCCGCGATGGCGACGACTACCTGATCAATGGCCGCAAGTGGCTGATCACCGGCGCA
GAAGGCGCTGACTTCGGCATCGTCATGGCGCGCATGGAGGATGGTACGGCGACCATGTTCCTGACCGACATG
AAGCGTGACGGCATCATCCATGAGCGCCAGTTGGACTCGCTGGACAGCTGCTTCACCGGTGGCCACGGGCAG
CTGCGTTTCGACAACCTGCGTATTCCGGCGAGCGATGTGCTCGGCGAGATCGGCAAGGGCTTCCGCTATGCC
CAGGTGCGCCTCGCGCCCGCGCGCTTGACCCACTGCATGCGCTGGCTGGGCGCCGCGCGCCGTGCCCACGAC
ATCGCCTGCGACTATGCGCGCACCCGAGATGCCTTCGGCAAGCCGCTGGGCGAGCACCAGGGTGTGGGCTTC
ATGCTGGCCGACAACATGATGGACCTGCACGTGGTGCGCCTGGCGGTGTGGCACTGCGCCTGGGTGCTCGAC
CAGGGCCGGCGGGCCAATGTCGACTCCAGCATGGCCAAGGTGATCAGCGCCGAGGCGTTGTGGCGGGTGGTC
GATCGTTGCGTCCAGGTACTGGGCGGGCGCGGGGTGACCGGGGAGACCGTGGTGGAGCGGATCTTCCGCGAC
ATTCGCCCGTTCCGCATCTATGACGGCCCGAGCGAGGTGCACCGCATGAGCCTGGCGAAGAAGCTGCTCGAC
CAGCGCCTGGAGGCCCACTGA
Translation:
MNFTLPDELLALQAKTRDFIAEQVIPLENDPRQDSHGPSDALRQDLVARARAAGLLTPHASREMGGLALSHV
AKAIVFEEAGYSPLGPVALNIHAPDEGNIHLMDVVATEAQKDRWLRPLVQGHARSCFAMTEPAPGSGSDPSM
LRTTAIRDGDDYLINGRKWLITGAEGADFGIVMARMEDGTATMFLTDMKRDGIIHERQLDSLDSCFTGGHGQ
LRFDNLRIPASDVLGEIGKGFRYAQVRLAPARLTHCMRWLGAARRAHDIACDYARTRDAFGKPLGEHQGVGF
MLADNMMDLHVVRLAVWHCAWVLDQGRRANVDSSMAKVISAEALWRVVDRCVQVLGGRGVTGETVVERIFRD
IRPFRIYDGPSEVHRMSLAKKLLDQRLEAH*
AnnotationID:5934GeneID:5933
AnnotatorUID: danlee
Modification Date/Time: 2005-10-11 16:04:39
Gene Name:PAGI-1(8)
Confidence Code:3
GeneProduct:Probable Acyl-CoA dehydrogenase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(13) Fatty acid and phospholipid metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:cd00567, cd01155, COG1960, cd01158
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|12698384|gb|AAK01498.1|  putative acyl-CoA dehydrogenase [Pseudomonas aeruginosa]
     Length=390
     Score =  784 bits (2025),  Expect = 0.0
     Identities = 386/389 (99%), Positives = 388/389 (99%), Gaps = 0/389 (0%)

gi|24984384|gb|AAN68401.1|  acyl-CoA dehydrogenase family protein [Pseudomonas putida KT2440]
     Length=390
     Score =  777 bits (2006),  Expect = 0.0
     Identities = 382/390 (97%), Positives = 385/390 (98%), Gaps = 0/390 (0%)

gi|54013914|dbj|BAD55284.1|  putative acyl-CoA dehydrogenase [Nocardia farcinica IFM 10152]
     Length=393
     Score =  441 bits (1135),  Expect = 2e-122
     Identities = 213/388 (54%), Positives = 285/388 (73%), Gaps = 6/388 (1%)






 
Structural Features:
cd00567, ACAD, Acyl-CoA dehydrogenase (ACAD). 
             CD-Length = 369 residues, 100.0% aligned
             Score =  270 bits (692), Expect = 2e-73

cd01155, ACAD_FadE2, FadE2-like Acyl-CoA dehydrogenase (ACAD).
             CD-Length = 394 residues,  98.5% aligned
             Score =  252 bits (645), Expect = 5e-68

COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism].
             CD-Length = 393 residues,  99.0% aligned
             Score =  240 bits (612), Expect = 3e-64

cd01158, SCAD/SBCAD, Short chain acyl-CoA dehydrogenase (SCAD).
             CD-Length = 373 residues, 100.0% aligned
             Score =  222 bits (567), Expect = 7e-59






   
Genomic Context:
Predicted gene #8 of the PAGI-1 island absent in PAO1 but present in a majority of pathogenic P. aeruginosa isolates.   
The PA14 island at this locus, from PA14_35860 to PA14_36030, corresponds to PAGI-1 genes 17 through 2, respectively.






   
Comment:
The first half of the PA14 island (from PA14_35700 through PA14_35850) diverges from PAGI-1 such that 
genes 18 through 51 are absent.  PA14 has 31 ORFs in 35368 bp (from PA14_35700 to PA14_36030), 
whereas PAGI-1 contains 51 ORFs in 51300 bp.



















    ReferenceID:11770




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28986




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:38199




  
Author/Investigator(s):
        Liang X, Pham XQ, Olson MV, Lory S.





  
Title:
        Identification of a genomic island present in the majority of pathogenic isolates of Pseudomonas aeruginosa.




  
PubMed:
        11208781


MedLine:
        




    
Source:
J Bacteriol. 2001 Feb;183(3):843-53.







    
Reference Type:Journal 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5933
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
197944
                           gb|AAK01498.1|
                           (AF241171) putative acyl-CoA dehydrogenase [Pseudomonas aeruginosa]
                           390
                           98.97
                           99.48
                           0
                           2025.0
     

     
     
197945
                           gb|AAN68401.1|AE016472_8
                           (AE016784) acyl-CoA dehydrogenase family protein [Pseudomonas putida KT2440]
                           390
                           97.94
                           98.71
                           0
                           2006.0
     

     
     
197946
                           gb|AAN50561.1|AE011495_10
                           (AE011495) Acyl-CoA dehydrogenase [Leptospira interrogans serovar lai str. 56601]
                           392
                           41.07
                           61.22
                           3
                           833.0
     

     
     
197947
                           dbj|BAA89258.1|
                           (AB024693) OrfH [Leptospira interrogans serovar icterohaemorrhagiae]
                           392
                           41.07
                           61.22
                           3
                           833.0
     

     






      

          
GC ORFID: 48935How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 1751812Stop: 1752984

          
Length: 1173


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: Homolog Bit Score 

          
Other Homologs:  

          
GC ORF Sequence

           
ATGAACTTCACCCTCCCGGACGAACTGCTCGCCTTGCAGGCCAAGACCCGAGACTTCATCGCCGAACAGGTC 
ATCCCGCTCGAGAACGACCCCCGCCAGGACAGCCACGGCCCCAGCGACGCCCTGCGCCAGGATCTGGTGGCC 
CGCGCCCGCGCGGCCGGCTTGCTGACGCCCCACGCCAGCCGCGAAATGGGTGGCCTGGCGCTGAGCCACGTG 
GCCAAGGCGATCGTCTTCGAAGAGGCCGGCTACTCGCCGCTGGGCCCGGTGGCGCTGAACATCCATGCCCCG 
GACGAAGGCAACATCCACCTGATGGACGTGGTCGCCACCGAGGCGCAGAAAGACCGCTGGTTGCGCCCGCTG 
GTCCAGGGCCATGCCCGTTCCTGCTTCGCCATGACCGAGCCTGCGCCAGGCTCCGGCTCGGACCCTTCGATG 
CTGCGCACCACCGCCATCCGCGATGGCGACGACTACCTGATCAATGGCCGCAAGTGGCTGATCACCGGCGCA 
GAAGGCGCTGACTTCGGCATCGTCATGGCGCGCATGGAGGATGGTACGGCGACCATGTTCCTGACCGACATG 
AAGCGTGACGGCATCATCCATGAGCGCCAGTTGGACTCGCTGGACAGCTGCTTCACCGGTGGCCACGGGCAG 
CTGCGTTTCGACAACCTGCGTATTCCGGCGAGCGATGTGCTCGGCGAGATCGGCAAGGGCTTCCGCTATGCC 
CAGGTGCGCCTCGCGCCCGCGCGCTTGACCCACTGCATGCGCTGGCTGGGCGCCGCGCGCCGTGCCCACGAC 
ATCGCCTGCGACTATGCGCGCACCCGAGATGCCTTCGGCAAGCCGCTGGGCGAGCACCAGGGTGTGGGCTTC 
ATGCTGGCCGACAACATGATGGACCTGCACGTGGTGCGCCTGGCGGTGTGGCACTGCGCCTGGGTGCTCGAC 
CAGGGCCGGCGGGCCAATGTCGACTCCAGCATGGCCAAGGTGATCAGCGCCGAGGCGTTGTGGCGGGTGGTC 
GATCGTTGCGTCCAGGTACTGGGCGGGCGCGGGGTGACCGGGGAGACCGTGGTGGAGCGGATCTTCCGCGAC 
ATTCGCCCGTTCCGCATCTATGACGGCCCGAGCGAGGTGCACCGCATGAGCCTGGCGAAGAAGCTGCTCGAC 
CAGCGCCTGGAGGCCCACTGA