ViewGene
Locus Name:
GeneID:
Location:

GeneID:1821
TrivialName: PA14_42450
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42450
PAO1 Ortholog Locus:PA1708
Sequence Length:1173
Protein Length:390
Start: 3781135
Stop: 3779963
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAC46212.1| (AF035922) PepB [Pseudomonas aeruginosa]
Identities = 389/390 (99%), Positives = 390/390 (100%)
Sequence:
ATGAATCCGATAACGCTTGAACGCGCCGGACTGCCCTACGGGGTGGCCGACGCCGGGGATATCCCGGCGCTC
GGCAGGCCGGTCGCGAGGGATGTCGAGAGTCTGCGGGTGGAGCGCCTGGCGGCGCCGGCCGCGGCTTCCGCG
AGCGGCACGGGGGTGGCGCTGACGCCGCCGTCCGCAGCCAGCCAGCAGCGCCTGGAGGTCGCCAATCGTGCG
GAGATCGCCAGCCTGGTGCAAGCAGTGGGCGAGGATGCCGGACTGGCGCGGCAGGTTGTGCTGGCCGGCGCT
TCGACGCTGTTGTCCGCTGGCCTGATGTCGCCGCAGGCGTTCGAGATCGAGCTGGCGAAAATCACCGGCGAA
GTCGAGAACCAGCAGAAGAAACTCAAGCTGACCGAAATCGAGCAGGCGCGAAAGCAGAACCTGCAGAAGATG
GAGGACAACCAGCAGAAGATCAGGGAATCGGAAGAAGCCGCGAAAGAAGCCCAGAAGTCCGGTCTGGCAGCC
AAAATCTTTGGTTGGATCAGTGCAATAGCTTCGATCATCGTCGGCGCAATCATGGTGGCAACCGGCGTCGGC
GCGGCCGCGGGTGCACTGATGATCGCGGGCGGTGTCATGGGAGTGGTCTCCCAGTCGGTACAGCAGGCAGCC
GCGGACGGATTGATCAGCAAGGAAGTGATGGAAAAGCTCGGCCCGGCACTGATGGGTATCGAGATCGCCGTC
GCGCTGCTGGCGGCGGTGGTCAGCTTCGGCGGCTCAGCGGTCGGCGGGCTGGCCAAGCTGGGCGCGAAGATC
GGCGGCAAGGCGGCCGAGATGACCGCCAGCCTGGCGAGCAAGGTCGCCGACCTGGGCGGCAAGTTCGGCAGT
TTGGCCGGCCAATCGCTGTCGCACTCGCTGAAACTCGGCGTGCAGGTTTCCGACCTGACCCTGGACGTCGCC
AACGGCGCGGCCCAGGCCACTCATTCGGGATTCCAGGCGAAGGCCGCGAACCGCCAGGCCGACGTGCAGGAA
TCGCGTGCCGACCTGACCACCCTGCAGGGCGTGATCGAGCGCCTGAAGGAAGAGCTGAGCCGCATGCTGGAA
GCATTCCAGGAAATCATGGAGCGGATCTTCGCCATGCTCCAGGCCAAGGGTGAAACCCTGCACAACCTGTCC
AGCCGACCGGCAGCGATCTGA
Translation:
MNPITLERAGLPYGVADAGDIPALGRPVARDVESLRVERLAAPAAASASGTGVALTPPSAASQQRLEVANRA
EIASLVQAVGEDAGLARQVVLAGASTLLSAGLMSPQAFEIELAKITGEVENQQKKLKLTEIEQARKQNLQKM
EDNQQKIRESEEAAKEAQKSGLAAKIFGWISAIASIIVGAIMVATGVGAAAGALMIAGGVMGVVSQSVQQAA
ADGLISKEVMEKLGPALMGIEIAVALLAAVVSFGGSAVGGLAKLGAKIGGKAAEMTASLASKVADLGGKFGS
LAGQSLSHSLKLGVQVSDLTLDVANGAAQATHSGFQAKAANRQADVQESRADLTTLQGVIERLKEELSRMLE
AFQEIMERIFAMLQAKGETLHNLSSRPAAI*
AnnotationID:1830GeneID:1821
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 08:08:19
Gene Name:popB
Confidence Code:1
GeneProduct:translocator protein PopB
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|AAO18055.1| (AY144116) LopB [Photorhabdus luminescens]
          Length = 387

 Score =  364 bits (935), Expect = e-100
 Identities = 202/361 (55%), Positives = 263/361 (72%), Gaps = 12/361 (3%)

>gb|AAN37532.1| (AY150843) Yop effector YopB [Yersinia enterocolitica]
          Length = 401

 Score =  288 bits (737), Expect = 4e-77
 Identities = 158/388 (40%), Positives = 243/388 (62%), Gaps = 22/388 (5%)








 
Structural Features:






   
Genomic Context:






   
Comment:


















    ReferenceID:3645




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20792




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37185




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1821_cdd.html


    		




 
URL:

















    ReferenceID:37847




  
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:37848




  
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:1821
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
99504
                           gb|AAC46212.1|
                           (AF035922) PepB [Pseudomonas aeruginosa]
                           390
                           99.74
                           99.99
                           0
                           1853.0
     

     
     
3202
                           PA1708_tr
                           translation of PA1708
                           390
                           99.23
                           99.74
                           0
                           1848.0
     

     
     
99505
                           gb|AAG05097.1|AE004597_11
                           (AE004597) translocator protein PopB [Pseudomonas aeruginosa PAO1]
                           390
                           99.23
                           99.74
                           0
                           1848.0
     

     
     
99506
                           gb|AAO91773.1|
                           (AY232997) PopB [Pseudomonas aeruginosa]
                           390
                           99.23
                           99.48
                           0
                           1843.0
     

     
     
99507
                           gb|AAC45937.1|
                           (AF010149) PopB [Pseudomonas aeruginosa]
                           392
                           98.97
                           99.23
                           2
                           1840.0
     

     






      

          
GC ORFID: 44823How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1708Glimmer Score: 

          
Start: 1172774Stop: 1173946

          
Length: 1173


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1708 translation of PA1708Homolog Bit Score 716.0

          
Other Homologs:  t_PA1708 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATCCGATAACGCTTGAACGCGCCGGACTGCCCTACGGGGTGGCCGACGCCGGGGATATCCCGGCGCTC 
GGCAGGCCGGTCGCGAGGGATGTCGAGAGTCTGCGGGTGGAGCGCCTGGCGGCGCCGGCCGCGGCTTCCGCG 
AGCGGCACGGGGGTGGCGCTGACGCCGCCGTCCGCAGCCAGCCAGCAGCGCCTGGAGGTCGCCAATCGTGCG 
GAGATCGCCAGCCTGGTGCAAGCAGTGGGCGAGGATGCCGGACTGGCGCGGCAGGTTGTGCTGGCCGGCGCT 
TCGACGCTGTTGTCCGCTGGCCTGATGTCGCCGCAGGCGTTCGAGATCGAGCTGGCGAAAATCACCGGCGAA 
GTCGAGAACCAGCAGAAGAAACTCAAGCTGACCGAAATCGAGCAGGCGCGAAAGCAGAACCTGCAGAAGATG 
GAGGACAACCAGCAGAAGATCAGGGAATCGGAAGAAGCCGCGAAAGAAGCCCAGAAGTCCGGTCTGGCAGCC 
AAAATCTTTGGTTGGATCAGTGCAATAGCTTCGATCATCGTCGGCGCAATCATGGTGGCAACCGGCGTCGGC 
GCGGCCGCGGGTGCACTGATGATCGCGGGCGGTGTCATGGGAGTGGTCTCCCAGTCGGTACAGCAGGCAGCC 
GCGGACGGATTGATCAGCAAGGAAGTGATGGAAAAGCTCGGCCCGGCACTGATGGGTATCGAGATCGCCGTC 
GCGCTGCTGGCGGCGGTGGTCAGCTTCGGCGGCTCAGCGGTCGGCGGGCTGGCCAAGCTGGGCGCGAAGATC 
GGCGGCAAGGCGGCCGAGATGACCGCCAGCCTGGCGAGCAAGGTCGCCGACCTGGGCGGCAAGTTCGGCAGT 
TTGGCCGGCCAATCGCTGTCGCACTCGCTGAAACTCGGCGTGCAGGTTTCCGACCTGACCCTGGACGTCGCC 
AACGGCGCGGCCCAGGCCACTCATTCGGGATTCCAGGCGAAGGCCGCGAACCGCCAGGCCGACGTGCAGGAA 
TCGCGTGCCGACCTGACCACCCTGCAGGGCGTGATCGAGCGCCTGAAGGAAGAGCTGAGCCGCATGCTGGAA 
GCATTCCAGGAAATCATGGAGCGGATCTTCGCCATGCTCCAGGCCAAGGGTGAAACCCTGCACAACCTGTCC 
AGCCGACCGGCAGCGATCTGA