ViewGene
Locus Name:
GeneID:
Location:

GeneID:1120
TrivialName: PA14_51880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_51880
PAO1 Ortholog Locus:PA0958
Sequence Length:1332
Protein Length:443
Start: 4606220
Stop: 4607551
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04347.1|AE004529_13 (AE004529) Basic amino acid, basic peptide and imipenem outer membrane porin OprD precursor [Pseudomonas aeruginosa PAO1]
Identities = 434/443 (97%), Positives = 436/443 (98%)
Sequence:
ATGAAAGTGATGAAGTGGAGCGCCATTGCACTGGCGGTTTCCGCAGGTAGCACTCAGTTCGCCGTGGCCGAC
GCATTCGTCAGCGATCAAGCCGAAGCGAAGGGGTTCATCGAAGACAGCAGCCTCGACCTGCTGCTCCGCAAC
TACTATTTCAACCGTGACGGCAAGAGCGGCAGCGGGGACCGCGTCGACTGGACCCAAGGCTTCCTCACCACC
TATGAATCCGGCTTCACCCAAGGCACCGTCGGCTTCGGCGTCGATGCCTTCGGCTACCTCGGTCTGAAGCTC
GACGGCACCTCCGACAAGAGCGGTACCGGCAACCTGCCAGTGATGAACGACGGCACGCCCCGTGACGACTAC
AGCCGCGCCGGTGGCGCCGTGAAGGTACGCATCTCCAAGACCATGTTGAAGTGGGGCGAGATGCAGCCGACC
GCTCCGGTCTTCGCCGCCGGCGGCAGCCGCCTGTTCCCGCAGACCGCGACCGGCTTCCAACTGCAGAGCAGC
GAACTCGAAGGGCTCGATCTCGAAGCGGGCCACTTCACCGAAGGCAAGCAGGGCACCACCACCAAGTCGCGC
GGCGAACTCTACGCAACCTATGCAGGCGAGACCGCCAAGAGCGCCGATTTCATTGGGGGCCGCTACGCAATC
ACCGATAACCTCAGCGCCTCCCTGTACGGTGCTGAACTCGAAGACATCTATCGTCAGTATTACCTGAACAGC
AACTACACCATCCCACTGGCATCCGACCAATCGCTGGGCTTCGATTTCAACATCTACCGCACAAACGATGAA
GGCAAGGCCAAGGCCGGCGACATCAGCAACACCACTTGGTCCCTGGCGGCAGCCTACACTCTGGATGCGCAC
ACTTTCACCTTGGCCTACCAGAAGGTCCATGGCGATCAGCCGTTTGATTATATCGGCTTCGGCGAGAACGGT
TCCGGCGGCGGCGGTGACTCGATTTTCCTCGCCAACTCCGTGCAGTACTCCGACTTCAACGGCCCCGGCGAG
AAATCCTGGCAGGCCCGCTACGACCTGAACCTCGCCTCCTATGGCGTTCCCGGCCTGACTTTCATGGTCCGC
TATATCAATGGCAAGGACATCGATGGCACCAAGATGTCTGACAACAACGTCGGCTATAAGAACTACGGCTAC
GGCGAGGACGGCAAGCACCACGAGACCAACCTCGAAGCCAAGTACGTGGTCCAGTCCGGTCCGGCCAAGGAC
CTGTCGTTCCGCATCCGCCAGGCCTGGCACCGCGCCAACGCCGACCAGGCCGAAGGCGACCAGAACGAGTTC
CGCCTGATCGTCGACTATCCGCTGTCGATCCTGTAA
Translation:
MKVMKWSAIALAVSAGSTQFAVADAFVSDQAEAKGFIEDSSLDLLLRNYYFNRDGKSGSGDRVDWTQGFLTT
YESGFTQGTVGFGVDAFGYLGLKLDGTSDKSGTGNLPVMNDGTPRDDYSRAGGAVKVRISKTMLKWGEMQPT
APVFAAGGSRLFPQTATGFQLQSSELEGLDLEAGHFTEGKQGTTTKSRGELYATYAGETAKSADFIGGRYAI
TDNLSASLYGAELEDIYRQYYLNSNYTIPLASDQSLGFDFNIYRTNDEGKAKAGDISNTTWSLAAAYTLDAH
TFTLAYQKVHGDQPFDYIGFGENGSGGGGDSIFLANSVQYSDFNGPGEKSWQARYDLNLASYGVPGLTFMVR
YINGKDIDGTKMSDNNVGYKNYGYGEDGKHHETNLEAKYVVQSGPAKDLSFRIRQAWHRANADQAEGDQNEF
RLIVDYPLSIL*
AnnotationID:1129GeneID:1120
AnnotatorUID: danlee
Modification Date/Time: 2004-05-11 15:03:50
Gene Name:oprD
Confidence Code:1
GeneProduct:Basic amino acid, basic peptide and imipenem outer membrane porin OprD precursor
Cell Localization:(6) Outer membrane protein
Synonyms:PA0958
Cell Localization Confidence Code:1
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam03573
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:
pfam03573, OprD, outer membrane porin, OprD family.
       CD-Length = 449 residues, 100.0% aligned
       Score =  577 bits (1488), Expect = 9e-166






   
Genomic Context:






   
Comment:


















    ReferenceID:2243




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19385




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32038




  
Author/Investigator(s):
        Yoneyama H, Yoshihara E, Nakae T.






  
Title:
        Nucleotide sequence of the protein D2 gene of Pseudomonas aeruginosa.




  
PubMed:
        93037310


MedLine:
        




    
Source:
Antimicrob Agents Chemother. 1992 Aug;36(8):1791-3.






    
Reference Type:Journal 







    
Data:


    		




 
URL:

















    ReferenceID:32039




  
Author/Investigator(s):
        Trias J, Nikaido H.






  
Title:
        Protein D2 channel of the Pseudomonas aeruginosa outer membrane has a binding site for basic amino acids and peptides.





  
PubMed:
        90368779 


MedLine:
        




    
Source:
J Biol Chem. 1990 Sep 15;265(26):15680-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1120
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2009
                           PA0958_tr
                           translation of PA0958
                           443
                           97.96
                           98.41
                           0
                           2286.0
     

     
     
68289
                           emb|CAA44855.1|
                           (X63152) protein D2 [Pseudomonas aeruginosa]
                           443
                           97.96
                           98.41
                           0
                           2286.0
     

     
     
68288
                           gb|AAG04347.1|AE004529_13
                           (AE004529) Basic amino acid, basic peptide and imipenem outer membrane porin OprD precursor [Pseudomonas aeruginosa PAO1]
                           443
                           97.96
                           98.41
                           0
                           2286.0
     

     
     
68290
                           emb|CAA78448.1|
                           (Z14065) OprD porin [Pseudomonas aeruginosa]
                           443
                           97.96
                           98.41
                           0
                           2286.0
     

     
     
68291
                           gb|AAO57446.1|
                           (AE016870) porin D [Pseudomonas syringae pv. tomato str. DC3000]
                           453
                           63.79
                           75.49
                           15
                           1467.0
     

     






      

          
GC ORFID: 44122How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0958Glimmer Score: 

          
Start: 347687Stop: 346356

          
Length: 1332


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA0958 translation of PA0958Homolog Bit Score 885.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4762 (ORF: BLASTX 585.0), t_PA2760 (ORF: BLASTX 345.0), t_PA2700 (ORF: BLASTX 336.0), t_PA0189 (ORF: BLASTX 325.0), t_PA2505 (ORF: BLASTX 325.0), t_PA0162 (ORF: BLASTX 322.0), t_PA3038 (ORF: BLASTX 283.0), t_PA0958 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAAGTGATGAAGTGGAGCGCCATTGCACTGGCGGTTTCCGCAGGTAGCACTCAGTTCGCCGTGGCCGAC 
GCATTCGTCAGCGATCAAGCCGAAGCGAAGGGGTTCATCGAAGACAGCAGCCTCGACCTGCTGCTCCGCAAC 
TACTATTTCAACCGTGACGGCAAGAGCGGCAGCGGGGACCGCGTCGACTGGACCCAAGGCTTCCTCACCACC 
TATGAATCCGGCTTCACCCAAGGCACCGTCGGCTTCGGCGTCGATGCCTTCGGCTACCTCGGTCTGAAGCTC 
GACGGCACCTCCGACAAGAGCGGTACCGGCAACCTGCCAGTGATGAACGACGGCACGCCCCGTGACGACTAC 
AGCCGCGCCGGTGGCGCCGTGAAGGTACGCATCTCCAAGACCATGTTGAAGTGGGGCGAGATGCAGCCGACC 
GCTCCGGTCTTCGCCGCCGGCGGCAGCCGCCTGTTCCCGCAGACCGCGACCGGCTTCCAACTGCAGAGCAGC 
GAACTCGAAGGGCTCGATCTCGAAGCGGGCCACTTCACCGAAGGCAAGCAGGGCACCACCACCAAGTCGCGC 
GGCGAACTCTACGCAACCTATGCAGGCGAGACCGCCAAGAGCGCCGATTTCATTGGGGGCCGCTACGCAATC 
ACCGATAACCTCAGCGCCTCCCTGTACGGTGCTGAACTCGAAGACATCTATCGTCAGTATTACCTGAACAGC 
AACTACACCATCCCACTGGCATCCGACCAATCGCTGGGCTTCGATTTCAACATCTACCGCACAAACGATGAA 
GGCAAGGCCAAGGCCGGCGACATCAGCAACACCACTTGGTCCCTGGCGGCAGCCTACACTCTGGATGCGCAC 
ACTTTCACCTTGGCCTACCAGAAGGTCCATGGCGATCAGCCGTTTGATTATATCGGCTTCGGCGAGAACGGT 
TCCGGCGGCGGCGGTGACTCGATTTTCCTCGCCAACTCCGTGCAGTACTCCGACTTCAACGGCCCCGGCGAG 
AAATCCTGGCAGGCCCGCTACGACCTGAACCTCGCCTCCTATGGCGTTCCCGGCCTGACTTTCATGGTCCGC 
TATATCAATGGCAAGGACATCGATGGCACCAAGATGTCTGACAACAACGTCGGCTATAAGAACTACGGCTAC 
GGCGAGGACGGCAAGCACCACGAGACCAACCTCGAAGCCAAGTACGTGGTCCAGTCCGGTCCGGCCAAGGAC 
CTGTCGTTCCGCATCCGCCAGGCCTGGCACCGCGCCAACGCCGACCAGGCCGAAGGCGACCAGAACGAGTTC 
CGCCTGATCGTCGACTATCCGCTGTCGATCCTGTAA