ViewGene
Locus Name:
GeneID:
Location:

GeneID:1240
TrivialName: PA14_09050
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_09050
PAO1 Ortholog Locus:PA4243
Sequence Length:1329
Protein Length:442
Start: 768367
Stop: 769695
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07631.1|AE004841_9 (AE004841) secretion protein SecY [Pseudomonas aeruginosa PAO1]
Identities = 442/442 (100%), Positives = 442/442 (100%)
Sequence:
ATGGCTAAGCAAGGTGCTCTCTCTGCGCTAAGCAACGGCGGTCTGTCCGAGCTCTGGGCACGTCTGCGTTTC
CTGTTCCTGGCGATCATCGTCTATCGGATCGGCGCGCACATCCCAGTTCCGGGCATCAACCCCGATCGCTTG
GCGGCACTGTTCCGGCAGAACGAGGGGACCATTCTTAGCCTCTTCAACATGTTTTCCGGCGGCGCGCTGGAG
CGCATGAGTATCTTTGCACTGGGGATCATGCCGTACATCTCGGCTTCGATCATCATGCAGCTCATGACCGCT
ATCAGCCCGCAGCTGGAGCAGTTGAAGAAAGAGGGTGAGTCTGGGCGTCGCAAGATCAGCCAGTACACCCGC
TACGGTACTGTAGTCCTGGCACTGGTCCAGGCCATCGGCATGTCCGTTGGCCTGGGCAGCCAGGGCGTAGCC
TTCTCCAACGACTTCGGCTTCTACTTCGTGGCTGTCACCACCTTCGTGGCTGGTGCCATGTTCATGATGTGG
CTGGGCGAGCAGATCACCGAGCGCGGTGTCGGCAACGGCATCTCGATGTTGATCTTCGCTGGTATCGTTGCA
GGCCTGCCGCGCGCCATCGGTCAGTCTTTCGAGTCTGCCCGTCAAGGTGACATCAACATCTTCGCCCTGATC
GGCGTCGGCCTGCTGGCCGTGGCGATCATCGCGTTCGTGGTGTTCATCGAGCGTGGCCAGCGTCGCATCGCG
GTGCATTACGCCAAGCGCCAGCAAGGCCGCAAGGTGTTTGCAGCGCAGACCAGCCATCTGCCGTTGAAGGTG
AACATGGCGGGTGTGATTCCCGCGATTTTCGCCAGCAGTATCCTGCTGTTCCCGGCGTCCCTGGGCTCCTGG
TTCGGTCAGTCGGAAGGCTTGGGTTGGTTGCAGGACGTCGCGCAAGCGATCGCTCCGGGGCAGCCGCTGAAC
ATCTTGCTGTTCACTGCAGGGATCGTTTTCTTCTGCTTCTTCTATACAGCGCTGATGTTCAACCCGAAGGAC
GTGGCGGAGAACCTCAAGAAGTCCGGTGCATTTATTCCGGGCATCCGTCCGGGCGAACAGTCCGCTCGCTAC
ATCGATGGCGTGCTGACCCGTTTGACCATGTTCGGTGCTCTGTACATGACGGCTGTCTGCCTGCTGCCCCAG
TTCCTGGTGGTTGCGGCGCACGTGCCGTTCTATCTTGGCGGGACCTCGCTGTTGATCGTGGTCGTGGTTGTC
ATGGACTTTATGGCCCAGGTGCAATCTCACCTCGTTTCTCACCAGTATGAATCCCTGATGAAGAAAGCCAAC
CTGAAGGGCTACGGCAGCGGCATGCTGCGCTGA
Translation:
MAKQGALSALSNGGLSELWARLRFLFLAIIVYRIGAHIPVPGINPDRLAALFRQNEGTILSLFNMFSGGALE
RMSIFALGIMPYISASIIMQLMTAISPQLEQLKKEGESGRRKISQYTRYGTVVLALVQAIGMSVGLGSQGVA
FSNDFGFYFVAVTTFVAGAMFMMWLGEQITERGVGNGISMLIFAGIVAGLPRAIGQSFESARQGDINIFALI
GVGLLAVAIIAFVVFIERGQRRIAVHYAKRQQGRKVFAAQTSHLPLKVNMAGVIPAIFASSILLFPASLGSW
FGQSEGLGWLQDVAQAIAPGQPLNILLFTAGIVFFCFFYTALMFNPKDVAENLKKSGAFIPGIRPGEQSARY
IDGVLTRLTMFGALYMTAVCLLPQFLVVAAHVPFYLGGTSLLIVVVVVMDFMAQVQSHLVSHQYESLMKKAN
LKGYGSGMLR*
AnnotationID:1249GeneID:1240
AnnotatorUID: diggins
Modification Date/Time: 2005-04-01 13:01:50
Gene Name:secY
Confidence Code:2
GeneProduct:secretion protein SecY
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:preprotein translocase, SecY subunit
Functional Category Confidence Code:5
COGs:COG0201,pfam00344
Secondary Functional Category(ies):membrane protein
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO54188.1| (AE016858) preprotein translocase, SecY subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 444

 Score =  821 bits (2120), Expect = 0.0
 Identities = 420/444 (94%), Positives = 433/444 (97%), Gaps = 2/444 (0%)

>gb|AAN66104.1|AE016238_22 (AE016775) Sec-dependent secretion protein SecY [Pseudomonas putida
           KT2440]
          Length = 443

 Score =  803 bits (2074), Expect = 0.0
 Identities = 408/443 (92%), Positives = 430/443 (97%), Gaps = 1/443 (0%)

>gb|AAN53336.1|AE015473_23 (AE015473) preprotein translocase, SecY subunit [Shewanella
           oneidensis MR-1]
          Length = 446

 Score =  593 bits (1530), Expect = e-169
 Identities = 292/435 (67%), Positives = 360/435 (82%), Gaps = 2/435 (0%)








 
Structural Features:
COG0201, SecY, Preprotein translocase subunit SecY 
[Intracellular trafficking and secretion]
CD-Length = 436 residues,  99.1% aligned
Score =  440 bits (1132), Expect = 2e-124
Identities = 221/438 (50%), Positives = 293/438 (66%), Gaps = 15/438 (3%)

pfam00344, SecY, eubacterial secY protein.
CD-Length = 345 residues, 100.0% aligned
Score =  356 bits (916), Expect = 3e-99
Identities = 165/346 (47%), Positives = 235/346 (67%), Gaps = 7/346 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2483




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19626




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36628




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1240_cdd.html


    		




 
URL:

















    ReferenceID:36711




  
Author/Investigator(s):
        Koivula T, Hemila H.





  
Title:
        Nucleotide sequence of a Lactococcus lactis gene cluster encoding adenylate kinase, initiation factor 1 and ribosomal proteins.




  
PubMed:
        1783905


MedLine:
        




    
Source:
J Gen Microbiol. 1991 Nov;137 ( Pt 11):2595-600.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1783905

















    ReferenceID:36714




  
Author/Investigator(s):
        Bieker KL, Phillips GJ, Silhavy TJ.





  
Title:
        The sec and prl genes of Escherichia coli.




  
PubMed:
        2202721


MedLine:
        




    
Source:
J Bioenerg Biomembr. 1990 Jun;22(3):291-310.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2202721

















    ReferenceID:36715




  
Author/Investigator(s):
        Ito K.





  
Title:
        Structure, function, and biogenesis of SecY, an integral membrane protein involved in protein export.




  
PubMed:
        2202723


MedLine:
        




    
Source:
J Bioenerg Biomembr. 1990 Jun;22(3):353-67.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2202723

















    ReferenceID:36716




  
Author/Investigator(s):
        Tschauder S, Driessen AJ, Freudl R.





  
Title:
        Cloning and molecular characterization of the secY genes from Bacillus licheniformis and Staphylococcus carnosus: comparative analysis of nine members of the SecY family.




  
PubMed:
        1435726


MedLine:
        




    
Source:
Mol Gen Genet. 1992 Oct;235(1):147-52.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1435726

















    ReferenceID:36717




  
Author/Investigator(s):
        Cerretti DP, Dean D, Davis GR, Bedwell DM, Nomura M.





  
Title:
        The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene.




  
PubMed:
        6222285


MedLine:
        




    
Source:
Nucleic Acids Res. 1983 May 11;11(9):2599-616.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6222285









           
Homologs By Global Alignment 

           

       



     
Gene ID:1240
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2257
                           PA4243_tr
                           translation of PA4243
                           442
                           99.99
                           99.99
                           0
                           2215.0
     

     
     
73801
                           gb|AAG07631.1|AE004841_9
                           (AE004841) secretion protein SecY [Pseudomonas aeruginosa PAO1]
                           442
                           99.99
                           99.99
                           0
                           2215.0
     

     
     
73802
                           gb|AAO54188.1|
                           (AE016858) preprotein translocase, SecY subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           444
                           94.59
                           97.52
                           2
                           2122.0
     

     
     
73803
                           gb|AAN66104.1|AE016238_22
                           (AE016775) Sec-dependent secretion protein SecY [Pseudomonas putida KT2440]
                           443
                           92.09
                           97.06
                           1
                           2076.0
     

     
     
73804
                           gb|AAN53336.1|AE015473_23
                           (AE015473) preprotein translocase, SecY subunit [Shewanella oneidensis MR-1]
                           450
                           65.11
                           80.44
                           12
                           1526.0
     

     






      

          
GC ORFID: 44242How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4243Glimmer Score: 

          
Start: 4185572Stop: 4184244

          
Length: 1329


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4243 translation of PA4243Homolog Bit Score 857.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5207 (ORF: BLASTX 821.0), t_PA4243 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTAAGCAAGGTGCTCTCTCTGCGCTAAGCAACGGCGGTCTGTCCGAGCTCTGGGCACGTCTGCGTTTC 
CTGTTCCTGGCGATCATCGTCTATCGGATCGGCGCGCACATCCCAGTTCCGGGCATCAACCCCGATCGCTTG 
GCGGCACTGTTCCGGCAGAACGAGGGGACCATTCTTAGCCTCTTCAACATGTTTTCCGGCGGCGCGCTGGAG 
CGCATGAGTATCTTTGCACTGGGGATCATGCCGTACATCTCGGCTTCGATCATCATGCAGCTCATGACCGCT 
ATCAGCCCGCAGCTGGAGCAGTTGAAGAAAGAGGGTGAGTCTGGGCGTCGCAAGATCAGCCAGTACACCCGC 
TACGGTACTGTAGTCCTGGCACTGGTCCAGGCCATCGGCATGTCCGTTGGCCTGGGCAGCCAGGGCGTAGCC 
TTCTCCAACGACTTCGGCTTCTACTTCGTGGCTGTCACCACCTTCGTGGCTGGTGCCATGTTCATGATGTGG 
CTGGGCGAGCAGATCACCGAGCGCGGTGTCGGCAACGGCATCTCGATGTTGATCTTCGCTGGTATCGTTGCA 
GGCCTGCCGCGCGCCATCGGTCAGTCTTTCGAGTCTGCCCGTCAAGGTGACATCAACATCTTCGCCCTGATC 
GGCGTCGGCCTGCTGGCCGTGGCGATCATCGCGTTCGTGGTGTTCATCGAGCGTGGCCAGCGTCGCATCGCG 
GTGCATTACGCCAAGCGCCAGCAAGGCCGCAAGGTGTTTGCAGCGCAGACCAGCCATCTGCCGTTGAAGGTG 
AACATGGCGGGTGTGATTCCCGCGATTTTCGCCAGCAGTATCCTGCTGTTCCCGGCGTCCCTGGGCTCCTGG 
TTCGGTCAGTCGGAAGGCTTGGGTTGGTTGCAGGACGTCGCGCAAGCGATCGCTCCGGGGCAGCCGCTGAAC 
ATCTTGCTGTTCACTGCAGGGATCGTTTTCTTCTGCTTCTTCTATACAGCGCTGATGTTCAACCCGAAGGAC 
GTGGCGGAGAACCTCAAGAAGTCCGGTGCATTTATTCCGGGCATCCGTCCGGGCGAACAGTCCGCTCGCTAC 
ATCGATGGCGTGCTGACCCGTTTGACCATGTTCGGTGCTCTGTACATGACGGCTGTCTGCCTGCTGCCCCAG 
TTCCTGGTGGTTGCGGCGCACGTGCCGTTCTATCTTGGCGGGACCTCGCTGTTGATCGTGGTCGTGGTTGTC 
ATGGACTTTATGGCCCAGGTGCAATCTCACCTCGTTTCTCACCAGTATGAATCCCTGATGAAGAAAGCCAAC 
CTGAAGGGCTACGGCAGCGGCATGCTGCGCTGA