ViewGene
Locus Name:
GeneID:
Location:

GeneID:2845
TrivialName: PA14_42440
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42440
PAO1 Ortholog Locus:PA1709
Sequence Length:888
Protein Length:295
Start: 3779951
Stop: 3779064
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAO91774.1| (AY232997) PopD [Pseudomonas aeruginosa]
Identities = 291/295 (98%), Positives = 293/295 (99%)
Sequence:
ATGATCGATACGCAATATTCCCTGGCGGCTACCCAGGCCGCGATCCCCTCCGAGCCGATCGCTCCCGGCGCC
GCCGGGCGTTCCGTCGGCACGCCGCAAGCGGCTGCGGAGCTGCCGCAGGTGCCGGCCGCGCGGGCCGACCGG
GTCGAACTGAACGCTCCGCGCCAGGTGCTCGACCCGGTGCGCATGGAAGCGGCCGGCAGCGAGCTGGACAGC
AGCGTCGAGCTTCTGCTGATTCTCTTCCGCATCGCGCAGAAGGCGCGCGAGCTGGGCGTGCTCCAGCGCGAC
AACGAGAACCAGGCGATCATCCACGCGCAGAAGGCGCAGGTGGACGAGATGCGCAGCGGCGCCACGCTGATG
ATCGCCATGGCGGTGATCGCCGGCGTCGGCGCGTTGGCCTCGGCAGTGGTCGGCAGTCTCGGCGCGTTGAAG
AACGGCAAGGCCATCAGCCAGGAGAAGACCCTGCAGAAGAACATCGATGGGCGCAACGAACTGATCGACGCG
AAGATGCAGGCGCTGGGCAAGACCTCCGATGAGGATCGCAAGATCGTCGGCAAGGTCTGGGCGGCGGACCAG
GCGCAGGACAGTGTGGCGTTGCGCGCGGCGGGCCGTGCCTTCGAGAGCCGCAACGGCGCCCTGCAGGTGGCC
AACACGGTGATCCAGTCCTTCGTCCAGATGGCCAACGCCTCGGTCCAGGTGCGCCAGGGCGAGTCGCAGGCG
AGCGCCCGGGAAGAGGAGGTCAACGCCACCATCGGGCAGAGCCAGAAGCAGAAGGTCGAGGACCAGATGAGC
TTCGATGCCGGCTTCATGAAGGACGTCCTGCAGCTCATCCAGCAGTACACCCAGAGCCATAACCAGGCCTGG
CGTGCGGCGGCCGGAGTGGTCTGA
Translation:
MIDTQYSLAATQAAIPSEPIAPGAAGRSVGTPQAAAELPQVPAARADRVELNAPRQVLDPVRMEAAGSELDS
SVELLLILFRIAQKARELGVLQRDNENQAIIHAQKAQVDEMRSGATLMIAMAVIAGVGALASAVVGSLGALK
NGKAISQEKTLQKNIDGRNELIDAKMQALGKTSDEDRKIVGKVWAADQAQDSVALRAAGRAFESRNGALQVA
NTVIQSFVQMANASVQVRQGESQASAREEEVNATIGQSQKQKVEDQMSFDAGFMKDVLQLIQQYTQSHNQAW
RAAAGVV*
AnnotationID:2853GeneID:2845
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 08:08:33
Gene Name:popD
Confidence Code:1
GeneProduct:translocator outer membrane protein PopD precursor
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:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18056.1| (AY144116) LopD [Photorhabdus luminescens]
          Length = 294

 Score =  259 bits (663), Expect = 1e-68
 Identities = 133/249 (53%), Positives = 180/249 (72%)

>gb|AAK69210.1|AF336309_5 (AF336309) translocator YopD [Yersinia enterocolitica]
          Length = 306

 Score =  206 bits (523), Expect = 2e-52
 Identities = 113/271 (41%), Positives = 166/271 (61%), Gaps = 9/271 (3%)






 
Structural Features:






   
Genomic Context:






   
Comment:


















    ReferenceID:5693




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22836




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37846




  
Author/Investigator(s):
        Frithz-Lindsten E, Holmstrom A, Jacobsson L, Soltani M, Olsson J, Rosqvist R, Forsberg A.





  
Title:
        Functional conservation of the effector protein translocators PopB/YopB and PopD/YopD of Pseudomonas aeruginosa and Yersinia pseudotuberculosis.




  
PubMed:
        9767584


MedLine:
        




    
Source:
Mol Microbiol. 1998 Sep;29(5):1155-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9767584

















    ReferenceID:37849




  
Author/Investigator(s):
        Allmond LR, Karaca TJ, Nguyen VN, Nguyen T, Wiener-Kronish JP, Sawa T.





  
Title:
        Protein binding between PcrG-PcrV and PcrH-PopB/PopD encoded by the pcrGVH-popBD operon of the Pseudomonas aeruginosa type III secretion system.




  
PubMed:
        12654846


MedLine:
        




    
Source:
Infect Immun. 2003 Apr;71(4):2230-3.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=12654846









           
Homologs By Global Alignment 

           

       



     
Gene ID:2845
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4612
                           PA1709_tr
                           translation of PA1709
                           295
                           98.64
                           99.32
                           0
                           1413.0
     

     
     
132790
                           gb|AAO91774.1|
                           (AY232997) PopD [Pseudomonas aeruginosa]
                           295
                           98.64
                           99.32
                           0
                           1413.0
     

     
     
132791
                           gb|AAG05098.1|AE004597_12
                           (AE004597) Translocator outer membrane protein PopD precursor [Pseudomonas aeruginosa PAO1]
                           295
                           98.64
                           99.32
                           0
                           1413.0
     

     
     
132792
                           gb|AAC46213.1|
                           (AF035922) PepD [Pseudomonas aeruginosa]
                           295
                           98.64
                           98.64
                           0
                           1409.0
     

     
     
132793
                           gb|AAC45938.1|
                           (AF010149) PopD [Pseudomonas aeruginosa]
                           295
                           98.30
                           98.98
                           0
                           1409.0
     

     






      

          
GC ORFID: 45847How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1709Glimmer Score: 

          
Start: 1173958Stop: 1174845

          
Length: 888


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1709 translation of PA1709Homolog Bit Score 548.0

          
Other Homologs:  t_PA1709 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGATCGATACGCAATATTCCCTGGCGGCTACCCAGGCCGCGATCCCCTCCGAGCCGATCGCTCCCGGCGCC 
GCCGGGCGTTCCGTCGGCACGCCGCAAGCGGCTGCGGAGCTGCCGCAGGTGCCGGCCGCGCGGGCCGACCGG 
GTCGAACTGAACGCTCCGCGCCAGGTGCTCGACCCGGTGCGCATGGAAGCGGCCGGCAGCGAGCTGGACAGC 
AGCGTCGAGCTTCTGCTGATTCTCTTCCGCATCGCGCAGAAGGCGCGCGAGCTGGGCGTGCTCCAGCGCGAC 
AACGAGAACCAGGCGATCATCCACGCGCAGAAGGCGCAGGTGGACGAGATGCGCAGCGGCGCCACGCTGATG 
ATCGCCATGGCGGTGATCGCCGGCGTCGGCGCGTTGGCCTCGGCAGTGGTCGGCAGTCTCGGCGCGTTGAAG 
AACGGCAAGGCCATCAGCCAGGAGAAGACCCTGCAGAAGAACATCGATGGGCGCAACGAACTGATCGACGCG 
AAGATGCAGGCGCTGGGCAAGACCTCCGATGAGGATCGCAAGATCGTCGGCAAGGTCTGGGCGGCGGACCAG 
GCGCAGGACAGTGTGGCGTTGCGCGCGGCGGGCCGTGCCTTCGAGAGCCGCAACGGCGCCCTGCAGGTGGCC 
AACACGGTGATCCAGTCCTTCGTCCAGATGGCCAACGCCTCGGTCCAGGTGCGCCAGGGCGAGTCGCAGGCG 
AGCGCCCGGGAAGAGGAGGTCAACGCCACCATCGGGCAGAGCCAGAAGCAGAAGGTCGAGGACCAGATGAGC 
TTCGATGCCGGCTTCATGAAGGACGTCCTGCAGCTCATCCAGCAGTACACCCAGAGCCATAACCAGGCCTGG 
CGTGCGGCGGCCGGAGTGGTCTGA