ViewGene
Locus Name:
GeneID:
Location:

GeneID:2393
TrivialName: PA14_35940
AnnotatorUID: ericdeziel
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_35940
PAO1 Ortholog Locus:
Sequence Length:1647
Protein Length:548
Start: 3200078
Stop: 3198432
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAK01500.1| (AF241171) AMP-binding protein domain [Pseudomonas aeruginosa]
Identities = 548/548 (100%), Positives = 548/548 (100%) to gene #10 of PAGI-1 island.
Sequence:
ATGGTTCCTACCCTCGAGCACGAGCTTGCTCCCAACGAAGCCAACCATGTCCCGCTGTCGCCGCTGTCGTTC
CTCAAGCGTGCCGCGCAGGTGTACCCGCAGCGCGATGCGGTGGTCTATGGCGCAAGGCGCTACAGCTACCGC
CAGTTGCACGAGCGCAGTTGCGCCCTGGCCAGCGCCCTGGAGCGGGTCGGCGTACAAGCGGGCGAGCGGGTG
GCGATACTGGCGCCGAATATCCCGGAAATGCTCGAGGCCCACTATGGCGTACCCGGTGCCGGGGCGGTGCTG
GTATGCATCAACATCCGCCTGGAGGCACGCAGCATCGCCTTCATCCTGCGCCACTGCGCGGCCAGGGTGCTG
ATCTGCGACCGTGAGTTCGGTGCCGTGGCCCAGCAGGCGCTGGCCATGCTCGATGCGCCGCCCTTGCTGGTG
GGCATCGACGATGATCAGGCCGAGCGAGCCGACCTCGCCCACGACCTGGACTATGAGGCGTTTCTGGCCCAG
GGCGACCCCGGGCGGCCGCTGAGTGCGCCGCAGAACGAATGGCAGTCGATCGCCATCAACTACACCTCCGGC
ACCACGGGGGATCCCAAGGGCGTGGTCCTGCATCACCGCGGCGCCTACCTCAACGCCTGCGCCGGCGCGCTG
ATCTTCCAGTTGGGGCCGCGCAGCGTCTACCTGTGGACCTTGCCGATGTTCCACTGCAACGGCTGGAGCCAT
ACCTGGGCGGTGACGCTGTCCGGTGGCACGCACGTGTGCCTGCGCAAGGTCCAGCCAGATGCGATCCACGCC
GCCATTGCCGAGCATGCGGTGACCCACCTGAGCGCCGCGCCGGTGGTGATGTCGATGCTGATCCATGCCGAG
CATGCCAGCGTCCCTGCCGTGCCGGTATCGGTGATCACCGGCGGCGCCGCGCCGCCCAGCGCGGTCATCGCC
GCCATGGAAGCACGCGGCTTCAGCATCACCCACGCCTACGGCATGACCGAAAGCTACGGCCCCAGCACCCTG
TGCCTGTGGCAGCCGGGGGTCGACGAATTGCCGCTGGAGGCCCGGGCCCAGTTCATGAGCCGCCAGGGCGTC
GCCCACCCGATGCTCGAGGAGGCCACGGTGCTGGATACCGACACCGGCCGTCCGGTCCCGGCCGACGGCCGC
ACCCTTGGCGAACTGGTAGTGCGGGGCAACACCGTGATGAAAGGCTACCTGCACAACCCCGAGGCCACCCGC
GCCGCGTTGGCCGACGGCTGGCTGCACACCGGCGACCTGGCCGTGCTGCACCCGGACGGCTACGTGGAAATC
AAGGACCGGGCCAAGGACATCATCATTTCCGGCGGCGAGAACATCAGCTCGCTGGAGATCGAGGAAGTGCTC
TACCAGCACCCCGAGGTGGTCGAGGCCGCGGTGGTGGCGCGCCCGGATTCGCGCTGGGGCGAGACACCCCAC
GCGTTCGTCGCCTTGCGGGCGGATGCCTTACCCAGAACCACGGGTGACGATCTGGTCCGCTGGTGCCGCGAG
CGCCTGGCGCACTTCAAGGCGCCGCGGCATGTGACGCTTACCGAACTGCCCAAGACCGCCACCGGCAAGATC
CAGAAGTTCGTCCTGCGCGAGTGGGCCCGGCAGGAGGAGGAGGCCGGCGAcgcaggCCGCTGA
Translation:
MVPTLEHELAPNEANHVPLSPLSFLKRAAQVYPQRDAVVYGARRYSYRQLHERSCALASALERVGVQAGERV
AILAPNIPEMLEAHYGVPGAGAVLVCINIRLEARSIAFILRHCAARVLICDREFGAVAQQALAMLDAPPLLV
GIDDDQAERADLAHDLDYEAFLAQGDPGRPLSAPQNEWQSIAINYTSGTTGDPKGVVLHHRGAYLNACAGAL
IFQLGPRSVYLWTLPMFHCNGWSHTWAVTLSGGTHVCLRKVQPDAIHAAIAEHAVTHLSAAPVVMSMLIHAE
HASVPAVPVSVITGGAAPPSAVIAAMEARGFSITHAYGMTESYGPSTLCLWQPGVDELPLEARAQFMSRQGV
AHPMLEEATVLDTDTGRPVPADGRTLGELVVRGNTVMKGYLHNPEATRAALADGWLHTGDLAVLHPDGYVEI
KDRAKDIIISGGENISSLEIEEVLYQHPEVVEAAVVARPDSRWGETPHAFVALRADALPRTTGDDLVRWCRE
RLAHFKAPRHVTLTELPKTATGKIQKFVLREWARQEEEAGDAGR*
AnnotationID:2401GeneID:2393
AnnotatorUID: danlee
Modification Date/Time: 2005-10-11 16:04:53
Gene Name:PAGI-1(10)
Confidence Code:3
GeneProduct:Putative Acyl-CoA synthetase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(4) Biosynthesis of cofactors, prosthetic groups and carriers
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0318, pfam00501, COG0365
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|12698386|gb|AAK01500.1|  AMP-binding protein domain [Pseudomonas aeruginosa]
     Length=563
     Score = 1109 bits (2868),  Expect = 0.0
     Identities = 548/548 (100%), Positives = 548/548 (100%), Gaps = 0/548 (0%)

gi|24984387|gb|AAN68403.1|  AMP-binding domain protein [Pseudomonas putida KT2440]
     Length=548
     Score = 1044 bits (2699),  Expect = 0.0
     Identities = 517/541 (95%), Positives = 527/541 (97%), Gaps = 2/541 (0%)

gi|11350992|pir||B83121  probable AMP-binding enzyme PA4198 [Pseudomonas aeruginosa strain PAO1]
     Length=540
     Score =  609 bits (1570),  Expect = 9e-173
     Identities = 299/534 (55%), Positives = 376/534 (70%), Gaps = 3/534 (0%)







 
Structural Features:
COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary 
metabolites biosynthesis, transport, and catabolism].
             CD-Length = 534 residues,  99.3% aligned
             Score =  389 bits (999), Expect = 6e-109

pfam00501, AMP-binding, AMP-binding enzyme.
             CD-Length = 412 residues,  98.3% aligned
             Score =  282 bits (722), Expect = 7e-77

COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism].
             CD-Length = 528 residues,  96.4% aligned
             Score =  233 bits (595), Expect = 5e-62







   
Genomic Context:
Predicted gene #10 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:4789




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21935




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:38201




  
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:2393
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
121425
                           gb|AAK01500.1|
                           (AF241171) AMP-binding protein domain [Pseudomonas aeruginosa]
                           563
                           97.33
                           97.33
                           15
                           2868.0
     

     
     
121426
                           gb|AAN68403.1|AE016473_1
                           (AE016784) AMP-binding domain protein [Pseudomonas putida KT2440]
                           550
                           94.36
                           96.36
                           4
                           2700.0
     

     
     
4043
                           PA4198_tr
                           translation of PA4198
                           552
                           54.34
                           68.65
                           16
                           1569.0
     

     
     
121427
                           gb|AAG07585.1|AE004836_4
                           (AE004836) probable AMP-binding enzyme [Pseudomonas aeruginosa PAO1]
                           552
                           54.34
                           68.65
                           16
                           1569.0
     

     
     
121428
                           gb|AAN69154.1|AE016549_3
                           (AE016787) AMP-binding domain protein [Pseudomonas putida KT2440]
                           553
                           53.70
                           67.45
                           18
                           1524.0
     

     






      

          
GC ORFID: 45395How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4198Glimmer Score: 

          
Start: 1753838Stop: 1755484

          
Length: 1647


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4198 translation of PA4198Homolog Bit Score 609.0

          
Other Homologs:  t_PA4198 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGTTCCTACCCTCGAGCACGAGCTTGCTCCCAACGAAGCCAACCATGTCCCGCTGTCGCCGCTGTCGTTC 
CTCAAGCGTGCCGCGCAGGTGTACCCGCAGCGCGATGCGGTGGTCTATGGCGCAAGGCGCTACAGCTACCGC 
CAGTTGCACGAGCGCAGTTGCGCCCTGGCCAGCGCCCTGGAGCGGGTCGGCGTACAAGCGGGCGAGCGGGTG 
GCGATACTGGCGCCGAATATCCCGGAAATGCTCGAGGCCCACTATGGCGTACCCGGTGCCGGGGCGGTGCTG 
GTATGCATCAACATCCGCCTGGAGGCACGCAGCATCGCCTTCATCCTGCGCCACTGCGCGGCCAGGGTGCTG 
ATCTGCGACCGTGAGTTCGGTGCCGTGGCCCAGCAGGCGCTGGCCATGCTCGATGCGCCGCCCTTGCTGGTG 
GGCATCGACGATGATCAGGCCGAGCGAGCCGACCTCGCCCACGACCTGGACTATGAGGCGTTTCTGGCCCAG 
GGCGACCCCGGGCGGCCGCTGAGTGCGCCGCAGAACGAATGGCAGTCGATCGCCATCAACTACACCTCCGGC 
ACCACGGGGGATCCCAAGGGCGTGGTCCTGCATCACCGCGGCGCCTACCTCAACGCCTGCGCCGGCGCGCTG 
ATCTTCCAGTTGGGGCCGCGCAGCGTCTACCTGTGGACCTTGCCGATGTTCCACTGCAACGGCTGGAGCCAT 
ACCTGGGCGGTGACGCTGTCCGGTGGCACGCACGTGTGCCTGCGCAAGGTCCAGCCAGATGCGATCCACGCC 
GCCATTGCCGAGCATGCGGTGACCCACCTGAGCGCCGCGCCGGTGGTGATGTCGATGCTGATCCATGCCGAG 
CATGCCAGCGTCCCTGCCGTGCCGGTATCGGTGATCACCGGCGGCGCCGCGCCGCCCAGCGCGGTCATCGCC 
GCCATGGAAGCACGCGGCTTCAGCATCACCCACGCCTACGGCATGACCGAAAGCTACGGCCCCAGCACCCTG 
TGCCTGTGGCAGCCGGGGGTCGACGAATTGCCGCTGGAGGCCCGGGCCCAGTTCATGAGCCGCCAGGGCGTC 
GCCCACCCGATGCTCGAGGAGGCCACGGTGCTGGATACCGACACCGGCCGTCCGGTCCCGGCCGACGGCCGC 
ACCCTTGGCGAACTGGTAGTGCGGGGCAACACCGTGATGAAAGGCTACCTGCACAACCCCGAGGCCACCCGC 
GCCGCGTTGGCCGACGGCTGGCTGCACACCGGCGACCTGGCCGTGCTGCACCCGGACGGCTACGTGGAAATC 
AAGGACCGGGCCAAGGACATCATCATTTCCGGCGGCGAGAACATCAGCTCGCTGGAGATCGAGGAAGTGCTC 
TACCAGCACCCCGAGGTGGTCGAGGCCGCGGTGGTGGCGCGCCCGGATTCGCGCTGGGGCGAGACACCCCAC 
GCGTTCGTCGCCTTGCGGGCGGATGCCTTACCCAGAACCACGGGTGACGATCTGGTCCGCTGGTGCCGCGAG 
CGCCTGGCGCACTTCAAGGCGCCGCGGCATGTGACGCTTACCGAACTGCCCAAGACCGCCACCGGCAAGATC 
CAGAAGTTCGTCCTGCGCGAGTGGGCCCGGCAGGAGGAGGAGGCCGGCGAcgcaggCCGCTGA