ViewGene
Locus Name:
GeneID:
Location:

GeneID:576
TrivialName: PA14_21340
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_21340
PAO1 Ortholog Locus:PA3300
Sequence Length:1689
Protein Length:562
Start: 1848101
Stop: 1849789
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06688.1|AE004752_4 (AE004752) long-chain-fatty-acid--CoA ligase [Pseudomonas aeruginosa PAO1]
Identities = 562/562 (100%), Positives = 562/562 (100%)
Sequence:
ATGCAACCTGAATTCTGGAACGACAAACGCCCGGCCGGCGTACCCGACAGTCTCGACTTCGCCGCCTACCGT
TCCGTGGTCGAGGTCTTCGAGCGCTCCTGCAAGAAATTCGCCGACCGCCCGGCCTTCAGCAATCTCGGCGTG
ACGCTCAGCTACGCCGAACTCGATCGTCTGTCCGCCGCCTTCGCCGCCTACCTGCAGAAACAGACCGATCTC
CAGCCCGGCGACCGCATCGCGGTGCAGATGCCCAATGTCCTGCAATATCCCATCGCGGTGTTCGGCGCCTTG
CGCGCGGGGCTGGTGGTGGTCAACACCAATCCGCTGTACACCGCCCGCGAAATGCGCCACCAGTTCAAGGAC
GCCGGCGTGCGTGCGCTGGTCTACCTGAACGTGTTCGGCAAGCTGGTCGAGGAAGTGCTCCCGGATACGCGG
ATCGAGTACCTGATCGAGGCGCGCATGGGCGACCTGTTGCCGGCGCTGAAGGGTTGGCTGGTGAACAGCGTG
GTGAAGTCGGTGAAGAAGATGGTCCCCGATTATCGCTTGCCCCAGGCGCTGCCGTTCAGGCAGGCCTTGAAG
CAAGGCCAGGGCCATGCCCTGCAGCCGGTCAGGGTCGGCCTGGAGGATGTCGCCGTGTTGCAGTACACCGGC
GGCACCACCGGGGTCTCGAAGGGGGCGATGCTCACCCACGGCAACCTGGTGGCGAACATGCTGCAGGTCCAC
GCCCAGCTTTCCCAGCTCGGCAAGGATGGCCTGCCGCTGATGAAGGAGGCGCAGGAGGTGATGATCGCGCCG
CTGCCGCTCTACCACATCTATGCCTTCACCGCGAACTGCATGTGCATGATGGTCAGCGGCAACCATAACGTG
CTGATCACCAACCCGCGCGACATCCCCGGTTTCGTCAAGGAACTGAAGAAGTGGCGTTTCTCCGCGCTGCTC
GGCCTCAACACCCTGTTCGTCGCGCTGATGGAGCATCCCGGGTTCAAGGACGTCGATTTCTCCAACCTGAAG
CTCACCAACTCCGGCGGCACTGCACTGGTCAGCGCCACCGCCGAGCGCTGGAAGGGTGTCACCGGCTGCACC
GTGGTGGAAGGCTATGGCCTCACCGAATGCTCGCCGGTGGTGACCACCAACCCCTACGGCGAGCAGGCGCGC
CTGGGCACGGTGGGGATTCCGGTCGTGGGCACGGCGCTCAAGGTGATCGACGAGCAGGGCAACGAGCTGCCT
GTCGGCGAACGTGGCGAACTCTGTGTGAAAGGTCCGCAAGTGATGAAGGGGTACTGGCAGCGTCCCGAGGCC
ACCGAGGAGATTCTCGATGCCGAAGGCTGGCTGAAGACCGGCGACATCGCGGTGATCGACGAGGACGGCTTC
GTGCGTATCGTCGATCGCAAGAAGGACCTGATCCTGGTCTCTGGCTTCAATGTCTACCCCAACGAGATCGAA
GACGTGGTGATGGCCCATCCGAAGGTGGCCAGTTGCGCGGCGGTGGGCATTCCCGACGAGAAGTCCGGCGAG
GCGGTGAAGCTGTTCGTGGTGGCCCGCGACCCCAGCCTGTCGGTCGAGGAGCTCAAGGCCTACTGCAAGGAA
AACCTCACCGGATACAAAATTCCGCGACAGATTGTGCTCAAGGATGCATTACCGATGACGCCTGTGGGTAAA
ATCCTCCGTCGTGAGCTGCGCGAAATCGCCTGA
Translation:
MQPEFWNDKRPAGVPDSLDFAAYRSVVEVFERSCKKFADRPAFSNLGVTLSYAELDRLSAAFAAYLQKQTDL
QPGDRIAVQMPNVLQYPIAVFGALRAGLVVVNTNPLYTAREMRHQFKDAGVRALVYLNVFGKLVEEVLPDTR
IEYLIEARMGDLLPALKGWLVNSVVKSVKKMVPDYRLPQALPFRQALKQGQGHALQPVRVGLEDVAVLQYTG
GTTGVSKGAMLTHGNLVANMLQVHAQLSQLGKDGLPLMKEAQEVMIAPLPLYHIYAFTANCMCMMVSGNHNV
LITNPRDIPGFVKELKKWRFSALLGLNTLFVALMEHPGFKDVDFSNLKLTNSGGTALVSATAERWKGVTGCT
VVEGYGLTECSPVVTTNPYGEQARLGTVGIPVVGTALKVIDEQGNELPVGERGELCVKGPQVMKGYWQRPEA
TEEILDAEGWLKTGDIAVIDEDGFVRIVDRKKDLILVSGFNVYPNEIEDVVMAHPKVASCAAVGIPDEKSGE
AVKLFVVARDPSLSVEELKAYCKENLTGYKIPRQIVLKDALPMTPVGKILRRELREIA*
AnnotationID:585GeneID:576
AnnotatorUID: diggins
Modification Date/Time: 2005-04-15 07:07:08
Gene Name:fadD2
Confidence Code:2
GeneProduct:long-chain-fatty-acid--CoA ligase
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:pfam00501,COG0318,COG0365,COG1022
Secondary Functional Category(ies):biosynthesiis of cofactors, prosthetic groups and carriers
EC Number:6.2.1.3
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70123.1|AE016652_4 (AE016791) long-chain-fatty-acid--CoA ligase [Pseudomonas putida
           KT2440]
          Length = 562

 Score =  934 bits (2413), Expect = 0.0
 Identities = 449/562 (79%), Positives = 510/562 (90%)

>gb|AAO57554.1| (AE016870) long-chain-fatty-acid--CoA ligase [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 562

 Score =  877 bits (2265), Expect = 0.0
 Identities = 423/562 (75%), Positives = 489/562 (87%)

>emb|CAB84971.1| (AL162757) long-chain-fatty-acid--CoA-ligase [Neisseria
           meningitidis Z2491]
          Length = 556

 Score =  609 bits (1570), Expect = e-173
 Identities = 295/557 (52%), Positives = 400/557 (71%), Gaps = 7/557 (1%)








 
Structural Features:
pfam00501, AMP-binding, AMP-binding enzyme.
CD-Length = 412 residues, 100.0% aligned
Score =  310 bits (794), Expect = 3e-85
Identities = 134/449 (29%), Positives = 207/449 (46%), Gaps = 42/449 (9%)

COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II 
CD-Length = 534 residues,  97.9% aligned
Score =  458 bits (1180), Expect = 6e-130
Identities = 211/556 (37%), Positives = 298/556 (53%), Gaps = 42/556 (7%)

COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
CD-Length = 528 residues,  91.1% aligned
Score =  269 bits (688), Expect = 8e-73
Identities = 139/521 (26%), Positives = 214/521 (41%), Gaps = 47/521 (9%)

COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]
CD-Length = 613 residues,  92.5% aligned
Score =  240 bits (613), Expect = 4e-64
Identities = 143/604 (23%), Positives = 231/604 (38%), Gaps = 98/604 (16%)






   
Genomic Context:






   
Comment:


















    ReferenceID:1155




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18297




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32253




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:576_cdd.html


    		




 
URL:

















    ReferenceID:34020




  
Author/Investigator(s):
        Black PN, DiRusso CC, Metzger AK, Heimert TL.





  
Title:
        Cloning, sequencing, and expression of the fadD gene of Escherichia coli encoding acyl coenzyme A synthetase.




  
PubMed:
        1460045


MedLine:
        




    
Source:
J Biol Chem. 1992 Dec 15;267(35):25513-20.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1460045









           
Homologs By Global Alignment 

           

       



     
Gene ID:576
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
986
                           PA3300_tr
                           translation of PA3300
                           562
                           99.99
                           99.99
                           0
                           2900.0
     

     
     
39066
                           gb|AAG06688.1|AE004752_4
                           (AE004752) long-chain-fatty-acid--CoA ligase [Pseudomonas aeruginosa PAO1]
                           562
                           99.99
                           99.99
                           0
                           2900.0
     

     
     
39067
                           gb|AAN70123.1|AE016652_4
                           (AE016791) long-chain-fatty-acid--CoA ligase [Pseudomonas putida KT2440]
                           562
                           79.89
                           90.74
                           0
                           2413.0
     

     
     
39068
                           gb|AAK18165.1|AF290948_2
                           (AF290948) FadD2 [Pseudomonas putida]
                           567
                           77.07
                           88.00
                           8
                           2298.0
     

     
     
39069
                           gb|AAO57554.1|
                           (AE016870) long-chain-fatty-acid--CoA ligase [Pseudomonas syringae pv. tomato str. DC3000]
                           562
                           75.26
                           87.01
                           0
                           2265.0
     

     






      

          
GC ORFID: 43578How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3300Glimmer Score: 

          
Start: 3105830Stop: 3104142

          
Length: 1689


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3300 translation of PA3300Homolog Bit Score 1121.0

          
Other Homologs:  psyr_15may02_Scaffold5_revised_gene6313 (ORF: BLASTX 893.0), psyr_15may02_Scaffold5_revised_gene6315 (ORF: BLASTX 695.0), t_PA3299 (ORF: BLASTX 689.0), t_PA3300 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAACCTGAATTCTGGAACGACAAACGCCCGGCCGGCGTACCCGACAGTCTCGACTTCGCCGCCTACCGT 
TCCGTGGTCGAGGTCTTCGAGCGCTCCTGCAAGAAATTCGCCGACCGCCCGGCCTTCAGCAATCTCGGCGTG 
ACGCTCAGCTACGCCGAACTCGATCGTCTGTCCGCCGCCTTCGCCGCCTACCTGCAGAAACAGACCGATCTC 
CAGCCCGGCGACCGCATCGCGGTGCAGATGCCCAATGTCCTGCAATATCCCATCGCGGTGTTCGGCGCCTTG 
CGCGCGGGGCTGGTGGTGGTCAACACCAATCCGCTGTACACCGCCCGCGAAATGCGCCACCAGTTCAAGGAC 
GCCGGCGTGCGTGCGCTGGTCTACCTGAACGTGTTCGGCAAGCTGGTCGAGGAAGTGCTCCCGGATACGCGG 
ATCGAGTACCTGATCGAGGCGCGCATGGGCGACCTGTTGCCGGCGCTGAAGGGTTGGCTGGTGAACAGCGTG 
GTGAAGTCGGTGAAGAAGATGGTCCCCGATTATCGCTTGCCCCAGGCGCTGCCGTTCAGGCAGGCCTTGAAG 
CAAGGCCAGGGCCATGCCCTGCAGCCGGTCAGGGTCGGCCTGGAGGATGTCGCCGTGTTGCAGTACACCGGC 
GGCACCACCGGGGTCTCGAAGGGGGCGATGCTCACCCACGGCAACCTGGTGGCGAACATGCTGCAGGTCCAC 
GCCCAGCTTTCCCAGCTCGGCAAGGATGGCCTGCCGCTGATGAAGGAGGCGCAGGAGGTGATGATCGCGCCG 
CTGCCGCTCTACCACATCTATGCCTTCACCGCGAACTGCATGTGCATGATGGTCAGCGGCAACCATAACGTG 
CTGATCACCAACCCGCGCGACATCCCCGGTTTCGTCAAGGAACTGAAGAAGTGGCGTTTCTCCGCGCTGCTC 
GGCCTCAACACCCTGTTCGTCGCGCTGATGGAGCATCCCGGGTTCAAGGACGTCGATTTCTCCAACCTGAAG 
CTCACCAACTCCGGCGGCACTGCACTGGTCAGCGCCACCGCCGAGCGCTGGAAGGGTGTCACCGGCTGCACC 
GTGGTGGAAGGCTATGGCCTCACCGAATGCTCGCCGGTGGTGACCACCAACCCCTACGGCGAGCAGGCGCGC 
CTGGGCACGGTGGGGATTCCGGTCGTGGGCACGGCGCTCAAGGTGATCGACGAGCAGGGCAACGAGCTGCCT 
GTCGGCGAACGTGGCGAACTCTGTGTGAAAGGTCCGCAAGTGATGAAGGGGTACTGGCAGCGTCCCGAGGCC 
ACCGAGGAGATTCTCGATGCCGAAGGCTGGCTGAAGACCGGCGACATCGCGGTGATCGACGAGGACGGCTTC 
GTGCGTATCGTCGATCGCAAGAAGGACCTGATCCTGGTCTCTGGCTTCAATGTCTACCCCAACGAGATCGAA 
GACGTGGTGATGGCCCATCCGAAGGTGGCCAGTTGCGCGGCGGTGGGCATTCCCGACGAGAAGTCCGGCGAG 
GCGGTGAAGCTGTTCGTGGTGGCCCGCGACCCCAGCCTGTCGGTCGAGGAGCTCAAGGCCTACTGCAAGGAA 
AACCTCACCGGATACAAAATTCCGCGACAGATTGTGCTCAAGGATGCATTACCGATGACGCCTGTGGGTAAA 
ATCCTCCGTCGTGAGCTGCGCGAAATCGCCTGA