ViewGene
Locus Name:
GeneID:
Location:

GeneID:2600
TrivialName: PA14_14650
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_14650
PAO1 Ortholog Locus:PA3820
Sequence Length:921
Protein Length:306
Start: 1249418
Stop: 1250338
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07207.1|AE004799_13 (AE004799) secretion protein SecF [Pseudomonas aeruginosa PAO1]
Identities = 302/306 (98%), Positives = 304/306 (99%)
Sequence:
ATGAATATCAAGATCGGTACCATCAACTTCATGGGCATCCGCAACATCGCGTTTGCCGTCACCCTGATCCTG
ACCGTCATCGCCCTGGGCAGCTGGTTCACCAAGGGCATCAACTTCGGCCTCGACTTCACCGGCGGTACGCTG
ATCGAGCTGACCTACGAACAACCGGCCGATCTCGGCAAGGTGCGTGGTCAACTGGTCGGCGCCGGCTACGAG
GACGCTGTGGTGCAGAGCTTCGGCGACGCCCGCGACGTGCTGGTGCGGATGCCCAGCGAGGACCCGGAACTG
GGCAAGAAGGTCGCTACCGCCTTGCAGCAGGCCGATACCGGCAACCCGGCGAACCTGAAGCGGGTCGAGTAC
GTCGGCCCGCAGGTGGGTGAAGAACTGCGCGACCAGGGCGGCCTCGGCATGCTCCTGGCGCTGGGCGGCATC
CTGCTGTACGTCGGCTTCCGCTTCCAGTGGAAGTTCGCCCTCGGGGCGATCCTCTCGCTGGTGCACGATGCG
ATCATCGTGATGGGCGTGCTGTCGTTCTTCCAGGTGACCTTCGACCTGACCGTCCTCGCCGCGGTGCTGGCG
GTGGTCGGTTACTCGCTGAACGACACCATCGTGATCTTCGACCGGGTGCGCGAGAACTTCCGCGTGCTGCGC
AAGGCCAGTCTGATCGAGAACCTGAACATCTCCACCAGCCAGACCCTGTTGCGCACCATCGCCACCTCGGTC
TCCACGCTGCTGGCCATCGCCGCGCTGCTGTTCTTCGGCGGCGACAACCTGTTCGGTTTCTCCATCGCCCTG
TTCGTCGGTGTAATGGCGGGTACCTACTCGTCGATCTACATCGCCAACGTGGTCTTGATCTGGCTGAACCTG
ACCAGCGAGGACCTGATCCCGCCGCAGGCCAAGGACACCGTCGACGATCGCCCCTGA
Translation:
MNIKIGTINFMGIRNIAFAVTLILTVIALGSWFTKGINFGLDFTGGTLIELTYEQPADLGKVRGQLVGAGYE
DAVVQSFGDARDVLVRMPSEDPELGKKVATALQQADTGNPANLKRVEYVGPQVGEELRDQGGLGMLLALGGI
LLYVGFRFQWKFALGAILSLVHDAIIVMGVLSFFQVTFDLTVLAAVLAVVGYSLNDTIVIFDRVRENFRVLR
KASLIENLNISTSQTLLRTIATSVSTLLAIAALLFFGGDNLFGFSIALFVGVMAGTYSSIYIANVVLIWLNL
TSEDLIPPQAKDTVDDRP*
AnnotationID:2608GeneID:2600
AnnotatorUID: diggins
Modification Date/Time: 2005-04-24 14:02:52
Gene Name:secF
Confidence Code:2
GeneProduct:protein-export membrane protein SecF
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0341,pfam02355
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66461.1|AE016275_6 (AE016777) protein-export membrane protein SecF [Pseudomonas putida
           KT2440]
          Length = 302

 Score =  480 bits (1236), Expect = e-135
 Identities = 233/300 (77%), Positives = 275/300 (91%)

>gb|AAO54937.1| (AE016860) protein-export membrane protein SecF [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 303

 Score =  476 bits (1224), Expect = e-134
 Identities = 232/300 (77%), Positives = 272/300 (90%)

>gb|AAO08965.1|AE016798_125 (AE016798) Preprotein translocase subunit SecF [Vibrio vulnificus
           CMCP6]
          Length = 315

 Score =  282 bits (722), Expect = 2e-75
 Identities = 144/297 (48%), Positives = 207/297 (69%), Gaps = 5/297 (1%)







 
Structural Features:
COG0341, SecF, Preprotein translocase subunit SecF 
[Intracellular trafficking and secretion]
CD-Length = 305 residues,  99.0% aligned
Score =  305 bits (782), Expect = 5e-84
Identities = 152/303 (50%), Positives = 210/303 (69%), Gaps = 3/303 (0%)

pfam02355, SecD_SecF, Protein export membrane protein.
CD-Length = 267 residues,  98.9% aligned
Score =  246 bits (629), Expect = 3e-66
Identities = 128/264 (48%), Positives = 189/264 (71%), Gaps = 4/264 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5203




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22348




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34304




  
Author/Investigator(s):
        Gardel C, Johnson K, Jacq A, Beckwith J.





  
Title:
        The secD locus of E.coli codes for two membrane proteins required for protein export.




  
PubMed:
        2170107


MedLine:
        




    
Source:
EMBO J. 1990 Oct;9(10):3209-16.

Erratum in:
    * EMBO J. 1990 Dec;9(12):4205-6.








    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2170107

















    ReferenceID:34305




  
Author/Investigator(s):
        Pogliano KJ, Beckwith J.





  
Title:
        Genetic and molecular characterization of the Escherichia coli secD operon and its products.




  
PubMed:
        7507921


MedLine:
        




    
Source:
J Bacteriol. 1994 Feb;176(3):804-14.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7507921

















    ReferenceID:34306




  
Author/Investigator(s):
        Bolhuis A, Broekhuizen CP, Sorokin A, van Roosmalen ML, Venema G, Bron S, Quax WJ, van Dijl JM.





  
Title:
        SecDF of Bacillus subtilis, a molecular Siamese twin required for the efficient secretion of proteins.




  
PubMed:
        9694879


MedLine:
        




    
Source:
J Biol Chem. 1998 Aug 14;273(33):21217-24.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9694879

















    ReferenceID:38105




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2600_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2600
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4309
                           PA3820_tr
                           translation of PA3820
                           306
                           98.69
                           99.34
                           0
                           1511.0
     

     
     
126245
                           gb|AAG07207.1|AE004799_13
                           (AE004799) secretion protein SecF [Pseudomonas aeruginosa PAO1]
                           306
                           98.69
                           99.34
                           0
                           1511.0
     

     
     
126247
                           gb|AAN66461.1|AE016275_6
                           (AE016777) protein-export membrane protein SecF [Pseudomonas putida KT2440]
                           306
                           76.14
                           90.19
                           4
                           1235.0
     

     
     
126248
                           gb|AAO54937.1|
                           (AE016860) protein-export membrane protein SecF [Pseudomonas syringae pv. tomato str. DC3000]
                           306
                           75.81
                           89.21
                           3
                           1223.0
     

     
     
126246
                           gb|AAM75416.1|
                           (AY115588) secretion protein SecF [Pseudomonas putida]
                           314
                           74.84
                           87.89
                           8
                           1244.0
     

     






      

          
GC ORFID: 45602How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3820Glimmer Score: 

          
Start: 3704520Stop: 3703600

          
Length: 921


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3820 translation of PA3820Homolog Bit Score 586.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4511 (ORF: BLASTX 475.0), t_PA3820 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATATCAAGATCGGTACCATCAACTTCATGGGCATCCGCAACATCGCGTTTGCCGTCACCCTGATCCTG 
ACCGTCATCGCCCTGGGCAGCTGGTTCACCAAGGGCATCAACTTCGGCCTCGACTTCACCGGCGGTACGCTG 
ATCGAGCTGACCTACGAACAACCGGCCGATCTCGGCAAGGTGCGTGGTCAACTGGTCGGCGCCGGCTACGAG 
GACGCTGTGGTGCAGAGCTTCGGCGACGCCCGCGACGTGCTGGTGCGGATGCCCAGCGAGGACCCGGAACTG 
GGCAAGAAGGTCGCTACCGCCTTGCAGCAGGCCGATACCGGCAACCCGGCGAACCTGAAGCGGGTCGAGTAC 
GTCGGCCCGCAGGTGGGTGAAGAACTGCGCGACCAGGGCGGCCTCGGCATGCTCCTGGCGCTGGGCGGCATC 
CTGCTGTACGTCGGCTTCCGCTTCCAGTGGAAGTTCGCCCTCGGGGCGATCCTCTCGCTGGTGCACGATGCG 
ATCATCGTGATGGGCGTGCTGTCGTTCTTCCAGGTGACCTTCGACCTGACCGTCCTCGCCGCGGTGCTGGCG 
GTGGTCGGTTACTCGCTGAACGACACCATCGTGATCTTCGACCGGGTGCGCGAGAACTTCCGCGTGCTGCGC 
AAGGCCAGTCTGATCGAGAACCTGAACATCTCCACCAGCCAGACCCTGTTGCGCACCATCGCCACCTCGGTC 
TCCACGCTGCTGGCCATCGCCGCGCTGCTGTTCTTCGGCGGCGACAACCTGTTCGGTTTCTCCATCGCCCTG 
TTCGTCGGTGTAATGGCGGGTACCTACTCGTCGATCTACATCGCCAACGTGGTCTTGATCTGGCTGAACCTG 
ACCAGCGAGGACCTGATCCCGCCGCAGGCCAAGGACACCGTCGACGATCGCCCCTGA