ViewGene
Locus Name:
GeneID:
Location:

GeneID:3212
TrivialName: PA14_72640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_72640
PAO1 Ortholog Locus:PA5505
Sequence Length:783
Protein Length:260
Start: 6470308
Stop: 6471090
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08890.1|AE004963_3 (AE004963) probable TonB-dependent receptor [Pseudomonas aeruginosa PAO1]
Identities = 255/260 (98%), Positives = 259/260 (99%)
Sequence:
ATGAAAAAACTGCTTGCTGCTTTCTCCGCTGTCGCGGCGCTCGGCCTCACCGCCGCCCAGGCCGCCGAGACC
CTCACCGTCGCGGCCACCCCGGTGCCGCACGCGGAGATCCTCAATGTGGTCAAGCCGCTGCTGGCCAAGGAA
GGCGTGGAACTGATGGTCAAGGAGTTCACCGACTACGTGCAGCCGAACGTGCAGGTCTCGGAGAAGCGCCTG
GACGCCAACTTCTTCCAGCACCAGCCGTACCTCGATGAGTTCAACAAGGCCAAGGGCACCGACCTGGTCGCC
GTGACCGGCGTACACATCGAGCCGCTGGGCGCCTACTCGAGCAAGTACAAGAAGCTCGACGAACTGCCTTCC
GGCGCTACCGTGGTGATCCCCAACGACGCCACCAACGGCGGCCGCGCCCTGCTCCTGCTGGACAAGGCCGGG
GTGATCAAGCTCAAGGACAACAAGAGCATCACCGCCACGCCGAAGGACATCGTCGACAATCCGAAGAACATC
AAGATCCGCGAACTGGAAGCCGCGACCCTGCCGCGCGTGCTGACCCAGGTCGACATGGCGCTGATCAATACC
AACTACGCCCTGGAAGCCAAGCTGAACCCGACCAAGGATGCGCTGGCCATCGAAGGCAGCGACTCGCCCTAC
GTGAACATCCTCGTCGCGCGCCCGGACAACAAGGACAGCGACGCCATGCAGAAGCTGGCCAAGGCCCTGCAC
AGCGCCGAGGTCAAGCAGTTCATCCAGGAGAAGTACAAAGGCGCAGTGGTACCGGCGTTCTGA
Translation:
MKKLLAAFSAVAALGLTAAQAAETLTVAATPVPHAEILNVVKPLLAKEGVELMVKEFTDYVQPNVQVSEKRL
DANFFQHQPYLDEFNKAKGTDLVAVTGVHIEPLGAYSSKYKKLDELPSGATVVIPNDATNGGRALLLLDKAG
VIKLKDNKSITATPKDIVDNPKNIKIRELEAATLPRVLTQVDMALINTNYALEAKLNPTKDALAIEGSDSPY
VNILVARPDNKDSDAMQKLAKALHSAEVKQFIQEKYKGAVVPAF*
AnnotationID:3220GeneID:3212
AnnotatorUID: diggins
Modification Date/Time: 2005-03-21 08:08:06
Gene Name:
Confidence Code:3
GeneProduct:putative ABC transporter, periplasmic binding protein
Cell Localization:()
Synonyms:PA5505
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:putative lipoprotein
Functional Category Confidence Code:5
COGs:COG1464,pfam03180
Secondary Functional Category(ies):membrane proteins
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65746.1|AE016200_10 (AE016774) ABC transporter, periplasmic binding protein, putative
           [Pseudomonas putida KT2440]
          Length = 256

 Score =  422 bits (1086), Expect = e-118
 Identities = 219/260 (84%), Positives = 233/260 (89%), Gaps = 4/260 (1%)

>gb|AAO58686.1| (AE016875) D-methionine-binding lipoprotein MetQ [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 257

 Score =  383 bits (984), Expect = e-106
 Identities = 195/260 (75%), Positives = 220/260 (84%), Gaps = 3/260 (1%)

>gb|AAM42898.1| (AE012484) outer membrane protein [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
          Length = 266

 Score =  330 bits (847), Expect = 4e-90
 Identities = 168/257 (65%), Positives = 204/257 (79%)






 
Structural Features:
COG1464, NlpA, ABC-type metal ion transport system,
periplasmic component/surface antigen 
[Inorganic ion transport and metabolism]
CD-Length = 268 residues,  96.6% aligned
Score =  332 bits (852), Expect = 3e-92
Identities = 162/259 (62%), Positives = 195/259 (75%), Gaps = 2/259 (0%)

pfam03180, Lipoprotein_9, NLPA lipoprotein. 
CD-Length = 237 residues, 100.0% aligned
Score =  318 bits (816), Expect = 5e-88
Identities = 154/237 (64%), Positives = 185/237 (78%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6427




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23569




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33277




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3212_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3212
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5181
                           PA5505_tr
                           translation of PA5505
                           260
                           98.07
                           99.61
                           0
                           1277.0
     

     
     
145593
                           gb|AAG08890.1|AE004963_3
                           (AE004963) probable TonB-dependent receptor [Pseudomonas aeruginosa PAO1]
                           260
                           98.07
                           99.61
                           0
                           1277.0
     

     
     
145594
                           gb|AAN65746.1|AE016200_10
                           (AE016774) ABC transporter, periplasmic binding protein, putative [Pseudomonas putida KT2440]
                           260
                           85.00
                           90.38
                           4
                           1091.0
     

     
     
145595
                           gb|AAO58686.1|
                           (AE016875) D-methionine-binding lipoprotein MetQ [Pseudomonas syringae pv. tomato str. DC3000]
                           260
                           75.00
                           84.61
                           3
                           987.0
     

     
     
5182
                           PA3931_tr
                           translation of PA3931
                           260
                           69.61
                           81.53
                           1
                           922.0
     

     






      

          
GC ORFID: 46214How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5505Glimmer Score: 

          
Start: 5733997Stop: 5734779

          
Length: 783


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5505 translation of PA5505Homolog Bit Score 496.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3200 (ORF: BLASTX 376.0), t_PA3931 (ORF: BLASTX 358.0), psyr_15may02_Scaffold2_revised_gene3238 (ORF: BLASTX 348.0), t_PA2349 (ORF: BLASTX 151.0), t_PA5505 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAAAAACTGCTTGCTGCTTTCTCCGCTGTCGCGGCGCTCGGCCTCACCGCCGCCCAGGCCGCCGAGACC 
CTCACCGTCGCGGCCACCCCGGTGCCGCACGCGGAGATCCTCAATGTGGTCAAGCCGCTGCTGGCCAAGGAA 
GGCGTGGAACTGATGGTCAAGGAGTTCACCGACTACGTGCAGCCGAACGTGCAGGTCTCGGAGAAGCGCCTG 
GACGCCAACTTCTTCCAGCACCAGCCGTACCTCGATGAGTTCAACAAGGCCAAGGGCACCGACCTGGTCGCC 
GTGACCGGCGTACACATCGAGCCGCTGGGCGCCTACTCGAGCAAGTACAAGAAGCTCGACGAACTGCCTTCC 
GGCGCTACCGTGGTGATCCCCAACGACGCCACCAACGGCGGCCGCGCCCTGCTCCTGCTGGACAAGGCCGGG 
GTGATCAAGCTCAAGGACAACAAGAGCATCACCGCCACGCCGAAGGACATCGTCGACAATCCGAAGAACATC 
AAGATCCGCGAACTGGAAGCCGCGACCCTGCCGCGCGTGCTGACCCAGGTCGACATGGCGCTGATCAATACC 
AACTACGCCCTGGAAGCCAAGCTGAACCCGACCAAGGATGCGCTGGCCATCGAAGGCAGCGACTCGCCCTAC 
GTGAACATCCTCGTCGCGCGCCCGGACAACAAGGACAGCGACGCCATGCAGAAGCTGGCCAAGGCCCTGCAC 
AGCGCCGAGGTCAAGCAGTTCATCCAGGAGAAGTACAAAGGCGCAGTGGTACCGGCGTTCTGA