ViewGene
Locus Name:
GeneID:
Location:

GeneID:1181
TrivialName: PA14_57670
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_57670
PAO1 Ortholog Locus:PA4439
Sequence Length:1347
Protein Length:448
Start: 5136923
Stop: 5135577
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07827.1|AE004858_5 (AE004858) tryptophanyl-tRNA synthetase [Pseudomonas aeruginosa PAO1]
Identities = 446/448 (99%), Positives = 447/448 (99%)
Sequence:
ATGACTACTCGTATCCTGACCGGCATCACTCCTACCGGCACTCCGCACCTGGGCAACTACGCCGGCGCCATC
CGCCCGGCGATCCTCGCCAGCCGTCGGAGCGACGTGGATTCGTTCTACTTCCTGGCGGACTACCACGCCTTG
ATCAAGTGCGACGATCCCGCTCGTATTCAGCGCTCGCGCCTGGAAATCGCCGCGACTTGGCTGGCCGGCGGC
CTGGACGTCGAGCGTGCGACCTTCTACCGGCAGTCGGACATCCCCGAGATTCCCGAGCTGACCTGGTTGCTC
ACCTGCGTCAGTGCCAAGGGCCTGCTCAACCGCGCGCATGCCTATAAGGCCGCGGTGGACCGCAATGTCGAG
GCCGGCGAAGACCCGGACGCCGGCGTGACCATGGGCCTCTACAGCTATCCGGTGCTGATGGCCGCGGACATC
CTGATGTTCAACGCGCACAAGATCCCGGTCGGCCGCGACCAGGTGCAGCACGTGGAGATGGCCCGCGACATC
GGCCAGCGTTTCAACCACCTGTTCGGCAACGGCCGCGAGTTCTTCGTCCTGCCCGAAGCGGTGATCGAGGAA
AACGTCGCCACCCTGCCGGGCCTGGACGGGCGCAAGATGTCCAAGAGCTACGACAACACCATCCCGCTGTTC
AGCCCGTCCAGGCAGCTCAAGGACGCCATCGCACGCATCGTCACCGACTCGCGCGCGCCGGGTGAGCCGAAG
GACCCGGACAGTTCGCACCTGTTCCTTCTTTACTCGGCCTTCGCCAGCGCCGAACAGGTCGCCGCGTTCCGC
CAGGAACTGCTCGACGGCCTGGCCTGGGGCGAAGCCAAGCAGCGCCTGTTCCAGTTGCTCGACAACGAACTG
GGCGAGGCTCGCGAGCGTTACCAGGCGCTGATCGCCAAGCCCGACGATATCGAGGACATTCTCCTCGCCGGC
GCCGCCAAGGCGCGCCGCATCGCAACCCCATTCATCGCCGAGTTGCGCGAGGCCGTCGGCCTGCGCTCCCTG
CGCGAGCCGCTGAAAAGTACCGAGAGCGGCAAGAAGAAGGCCGCCAAGGCTGCGCGCCTGGTCAGCTTCCGC
GACGACGACGGCAGCTTCCGCTTCCGCCTGCTGGACGCCGCCGGCGAACAGCTGCTGCTGTCCCGCGCCTTC
GCCGACGGCAAGGCCGCCGGTGCGGTGAGCAAGCGCCTGCTGGCTGGCGAGACTGCCGACCTGCGGGCCGAG
GGCAATGCCTTTGGCCTGTGGCTGGATGGCGAGGCGGTGGCGCAGAGCCCGGCCTTCGCCGACGCCGCCGCC
CGTGACGCCGCCATCGAGCGCACCCGCGAAGCGCTGGCGCCGCAGGAGTAG
Translation:
MTTRILTGITPTGTPHLGNYAGAIRPAILASRRSDVDSFYFLADYHALIKCDDPARIQRSRLEIAATWLAGG
LDVERATFYRQSDIPEIPELTWLLTCVSAKGLLNRAHAYKAAVDRNVEAGEDPDAGVTMGLYSYPVLMAADI
LMFNAHKIPVGRDQVQHVEMARDIGQRFNHLFGNGREFFVLPEAVIEENVATLPGLDGRKMSKSYDNTIPLF
SPSRQLKDAIARIVTDSRAPGEPKDPDSSHLFLLYSAFASAEQVAAFRQELLDGLAWGEAKQRLFQLLDNEL
GEARERYQALIAKPDDIEDILLAGAAKARRIATPFIAELREAVGLRSLREPLKSTESGKKKAAKAARLVSFR
DDDGSFRFRLLDAAGEQLLLSRAFADGKAAGAVSKRLLAGETADLRAEGNAFGLWLDGEAVAQSPAFADAAA
RDAAIERTREALAPQE*
AnnotationID:1190GeneID:1181
AnnotatorUID: diggins
Modification Date/Time: 2005-05-02 21:09:29
Gene Name:trpS
Confidence Code:2
GeneProduct: tryptophanyl-tRNA synthetase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name: tryptophan-tRNA ligase
Functional Category Confidence Code:5
COGs:COG0180,KOG2713
Secondary Functional Category(ies):
EC Number:6.1.1.2
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57878.1| (AE016871) tryptophanyl-tRNA synthetase [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 449

 Score =  708 bits (1828), Expect = 0.0
 Identities = 351/448 (78%), Positives = 393/448 (87%)

>gb|AAN66935.1|AE016322_2 (AE016778) tryptophanyl-tRNA synthetase, putative [Pseudomonas
           putida KT2440]
          Length = 449

 Score =  704 bits (1818), Expect = 0.0
 Identities = 350/448 (78%), Positives = 395/448 (88%)









 
Structural Features:
COG0180, TrpS, Tryptophanyl-tRNA synthetase 
[Translation, ribosomal structure and biogenesis]
CD-Length = 314 residues,  99.0% aligned
Score =  312 bits (801), Expect = 1e-85
Identities = 129/323 (39%), Positives = 182/323 (56%), Gaps = 20/323 (6%)

KOG2713, Mitochondrial tryptophanyl-tRNA synthetase 
[Translation, ribosomal structure and biogenesis]
CD-Length = 347 residues,  96.0% aligned
Score =  231 bits (589), Expect = 4e-61
Identities = 112/346 (32%), Positives = 186/346 (53%), Gaps = 26/346 (7%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2365




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19507




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31478




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1181_cdd.html


    		




 
URL:

















    ReferenceID:32820




  
Author/Investigator(s):
        Bacher JM, Ellington AD.





  
Title:
        Selection and characterization of Escherichia coli variants capable of growth on an otherwise toxic tryptophan analogue.




  
PubMed:
        11514527


MedLine:
        




    
Source:
J Bacteriol. 2001 Sep;183(18):5414-25.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11514527

















    ReferenceID:32821




  
Author/Investigator(s):
        Sever S, Rogers K, Rogers MJ, Carter C Jr, Soll D.





  
Title:
        Escherichia coli tryptophanyl-tRNA synthetase mutants selected for tryptophan auxotrophy implicate the dimer interface in optimizing amino acid binding.




  
PubMed:
        8555191


MedLine:
        




    
Source:
Biochemistry. 1996 Jan 9;35(1):32-40.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8555191

















    ReferenceID:32822




  
Author/Investigator(s):
        Hall CV, vanCleemput M, Muench KH, Yanofsky C.





  
Title:
        The nucleotide sequence of the structural gene for Escherichia coli tryptophanyl-tRNA synthetase.




  
PubMed:
        7042706


MedLine:
        




    
Source:
J Biol Chem. 1982 Jun 10;257(11):6132-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7042706

















    ReferenceID:32823




  
Author/Investigator(s):
        Hall CV, Yanofsky C.





  
Title:
        Cloning and characterization of the gene for Escherichia coli tryptophanyl-transfer ribonucleic acid synthetase.




  
PubMed:
        6171561


MedLine:
        




    
Source:
J Bacteriol. 1981 Dec;148(3):941-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6171561

















    ReferenceID:32824




  
Author/Investigator(s):
        Pouwels PH, Pannekoek H.





  
Title:
        A transcriptional barrier in the regulatory region of the tryptophan operon of Escherichia coli: its role in the regulation of repressor-independent RNA synthesis.




  
PubMed:
        799244


MedLine:
        




    
Source:
Mol Gen Genet. 1976 Dec 22;149(3):255-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=799244

















    ReferenceID:32825




  
Author/Investigator(s):
        Ito K.





  
Title:
        Regulatory mechanism of the tryptophan operon in Escherichia coli: possible interaction between trpR and trpS gene products.




  
PubMed:
        4555910


MedLine:
        




    
Source:
Mol Gen Genet. 1972;115(4):349-63.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=4555910

















    ReferenceID:32826




  
Author/Investigator(s):
        to K, Hiraga S, Yura T.





  
Title:
        Tryptophanyl transfer RNA synthetase and expression of the tryptophan operon in the trpS mutants of Escherichia coli.




  
PubMed:
        4914847


MedLine:
        




    
Source:
Genetics. 1969 Mar;61(3):521-38.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=4914847









           
Homologs By Global Alignment 

           

       



     
Gene ID:1181
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2112
                           PA4439_tr
                           translation of PA4439
                           448
                           99.55
                           99.77
                           0
                           2254.0
     

     
     
70694
                           gb|AAG07827.1|AE004858_5
                           (AE004858) tryptophanyl-tRNA synthetase [Pseudomonas aeruginosa PAO1]
                           448
                           99.55
                           99.77
                           0
                           2254.0
     

     
     
70695
                           gb|AAO57878.1|
                           (AE016871) tryptophanyl-tRNA synthetase [Pseudomonas syringae pv. tomato str. DC3000]
                           449
                           78.17
                           87.52
                           1
                           1828.0
     

     
     
70696
                           gb|AAN66935.1|AE016322_2
                           (AE016778) tryptophanyl-tRNA synthetase, putative [Pseudomonas putida KT2440]
                           449
                           77.95
                           87.97
                           1
                           1818.0
     

     
     
70698
                           emb|CAE38487.1|
                           (BX640432) tryptophanyl-tRNA synthetase [Bordetella parapertussis]
                           454
                           64.75
                           77.53
                           9
                           1461.0
     

     






      

          
GC ORFID: 44183How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4439Glimmer Score: 

          
Start: 4400602Stop: 4399256

          
Length: 1347


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA4439 translation of PA4439Homolog Bit Score 872.0

          
Other Homologs:  psyr_15may02_Scaffold12_revised_gene2027 (ORF: BLASTX 709.0), t_PA4439 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACTACTCGTATCCTGACCGGCATCACTCCTACCGGCACTCCGCACCTGGGCAACTACGCCGGCGCCATC 
CGCCCGGCGATCCTCGCCAGCCGTCGGAGCGACGTGGATTCGTTCTACTTCCTGGCGGACTACCACGCCTTG 
ATCAAGTGCGACGATCCCGCTCGTATTCAGCGCTCGCGCCTGGAAATCGCCGCGACTTGGCTGGCCGGCGGC 
CTGGACGTCGAGCGTGCGACCTTCTACCGGCAGTCGGACATCCCCGAGATTCCCGAGCTGACCTGGTTGCTC 
ACCTGCGTCAGTGCCAAGGGCCTGCTCAACCGCGCGCATGCCTATAAGGCCGCGGTGGACCGCAATGTCGAG 
GCCGGCGAAGACCCGGACGCCGGCGTGACCATGGGCCTCTACAGCTATCCGGTGCTGATGGCCGCGGACATC 
CTGATGTTCAACGCGCACAAGATCCCGGTCGGCCGCGACCAGGTGCAGCACGTGGAGATGGCCCGCGACATC 
GGCCAGCGTTTCAACCACCTGTTCGGCAACGGCCGCGAGTTCTTCGTCCTGCCCGAAGCGGTGATCGAGGAA 
AACGTCGCCACCCTGCCGGGCCTGGACGGGCGCAAGATGTCCAAGAGCTACGACAACACCATCCCGCTGTTC 
AGCCCGTCCAGGCAGCTCAAGGACGCCATCGCACGCATCGTCACCGACTCGCGCGCGCCGGGTGAGCCGAAG 
GACCCGGACAGTTCGCACCTGTTCCTTCTTTACTCGGCCTTCGCCAGCGCCGAACAGGTCGCCGCGTTCCGC 
CAGGAACTGCTCGACGGCCTGGCCTGGGGCGAAGCCAAGCAGCGCCTGTTCCAGTTGCTCGACAACGAACTG 
GGCGAGGCTCGCGAGCGTTACCAGGCGCTGATCGCCAAGCCCGACGATATCGAGGACATTCTCCTCGCCGGC 
GCCGCCAAGGCGCGCCGCATCGCAACCCCATTCATCGCCGAGTTGCGCGAGGCCGTCGGCCTGCGCTCCCTG 
CGCGAGCCGCTGAAAAGTACCGAGAGCGGCAAGAAGAAGGCCGCCAAGGCTGCGCGCCTGGTCAGCTTCCGC 
GACGACGACGGCAGCTTCCGCTTCCGCCTGCTGGACGCCGCCGGCGAACAGCTGCTGCTGTCCCGCGCCTTC 
GCCGACGGCAAGGCCGCCGGTGCGGTGAGCAAGCGCCTGCTGGCTGGCGAGACTGCCGACCTGCGGGCCGAG 
GGCAATGCCTTTGGCCTGTGGCTGGATGGCGAGGCGGTGGCGCAGAGCCCGGCCTTCGCCGACGCCGCCGCC 
CGTGACGCCGCCATCGAGCGCACCCGCGAAGCGCTGGCGCCGCAGGAGTAG