ViewGene
Locus Name:
GeneID:
Location:

GeneID:2396
TrivialName: PA14_13600
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_13600
PAO1 Ortholog Locus:PA3889
Sequence Length:936
Protein Length:311
Start: 1170390
Stop: 1169455
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07276.1|AE004806_3 (AE004806) probable binding protein component of ABC transporter [Pseudomonas aeruginosa PAO1]
Identities = 308/311 (99%), Positives = 308/311 (99%)
Sequence:
ATGAACCGACTGATCCGCTCACTCTGCCTGGCCTGCGCCGGCCTGCTCGCCGCCGGCCTGGCGCAGGCGGAA
ACCCTGCGCATCGGCGGCAAGACCTTCACCGAGCAGCGCATCCTCACCGCCATCACCGCGCAGTTCCTGCAG
AAGCGCGGCTACGACGTGACGGTCACCACCGGCCTGGGCAGCACCCTGGCCCGCGCCGCCCAGGAAAGCGGC
CAACTGGATATCGTCTGGGAATACACCGGCTCGTCGCTGATCGTCTACAACCACATCGACGAGAAGCTCGAC
GCCGCGGCTTCCTACCGCCGGGTCAAGCAACTCGACGAAGCCCAGGGCCTGGTCTGGCTGAAGCCGACCCGC
TTCAACAACACCTATGCCCTGGCCATGCCCGAGGAACAGGCCGAGCGCCTGGGCATCCAGAGCGTCAGCGAC
CTCGCGCGGGTGCTCGCCGAACAGCAGGAGGCCGAGCCCGGGAGCACCCACCTGTTCGCCATGGACCCGGAG
TTCGCCGGCCGCCCCGACGGCCTCGGCCCCATGAGCGAGCTGTACGGCCTGCACTTCACCCGCAACGACATC
CGCCAGATGGACGCCGGGCTGGTCTACACCGCGCTGAAGAACCGCCAGGTGTTCCTCGGCCTCGTCTACACC
ACCGACGGCCGCCTGAAGGATTTCAAGCTGCGCGTGCTGAAGGACGACAAGCAGTACTTCCCCTTCTACAAC
GCCGCCCCGGTGGTGCGTAAGGAGGTCATGCAGCGCCATCCGGAGTTCGCCACGCTGTTCGATCCGATCATC
GAGCGGCTCGACGACGCCACCATGCAGGCGCTCAACGCGCGGGTCGATATCGAGCAGCAGACGCCACAGAAG
GTCGCCGCCGACTTCCTCCGCGAACACCGCCTGCTCGACGACGGCCAGGCCGGCCAGGGAGGTAGCCAGTAA
Translation:
MNRLIRSLCLACAGLLAAGLAQAETLRIGGKTFTEQRILTAITAQFLQKRGYDVTVTTGLGSTLARAAQESG
QLDIVWEYTGSSLIVYNHIDEKLDAAASYRRVKQLDEAQGLVWLKPTRFNNTYALAMPEEQAERLGIQSVSD
LARVLAEQQEAEPGSTHLFAMDPEFAGRPDGLGPMSELYGLHFTRNDIRQMDAGLVYTALKNRQVFLGLVYT
TDGRLKDFKLRVLKDDKQYFPFYNAAPVVRKEVMQRHPEFATLFDPIIERLDDATMQALNARVDIEQQTPQK
VAADFLREHRLLDDGQAGQGGSQ*
AnnotationID:2404GeneID:2396
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 14:02:28
Gene Name:
Confidence Code:3
GeneProduct:putative binding protein component of ABC transpor
Cell Localization:()
Synonyms:PA3889
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1732,pfam04069
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58023.1| (AE016872) glycine betaine/L-proline ABC transporter, periplasmic
           substrate-binding protein [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 297

 Score =  327 bits (838), Expect = 6e-89
 Identities = 168/300 (56%), Positives = 222/300 (74%), Gaps = 9/300 (3%)

>emb|CAD01820.1| (AL627270) putative ABC transporter periplasmic binding protein
           [Salmonella enterica subsp. enterica serovar Typhi]
          Length = 300

 Score =  255 bits (651), Expect = 3e-67






 
Structural Features:
COG1732, OpuBC, Periplasmic glycine betaine/choline-binding (lipo)protein 
of an ABC-type transport system 
(osmoprotectant binding protein) 
[Cell envelope biogenesis, outer membrane]
CD-Length = 300 residues,  96.7% aligned
Score =  331 bits (849), Expect = 2e-91
Identities = 136/300 (45%), Positives = 181/300 (60%), Gaps = 16/300 (5%)

pfam04069, OpuAC, Substrate binding domain of ABC-type glycine betaine
CD-Length = 260 residues,  98.8% aligned
Score =  195 bits (497), Expect = 1e-50
Identities = 90/284 (31%), Positives = 137/284 (48%), Gaps = 31/284 (10%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4795




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21941




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31677




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2396_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2396
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4047
                           PA3889_tr
                           translation of PA3889
                           311
                           99.03
                           99.03
                           0
                           1571.0
     

     
     
121471
                           gb|AAG07276.1|AE004806_3
                           (AE004806) probable binding protein component of ABC transporter [Pseudomonas aeruginosa PAO1]
                           311
                           99.03
                           99.03
                           0
                           1571.0
     

     
     
121472
                           gb|AAO58023.1|
                           (AE016872) glycine betaine/L-proline ABC transporter, periplasmic substrate-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           316
                           53.16
                           70.25
                           24
                           847.0
     

     
     
121473
                           gb|AAN66495.1|AE016278_6
                           (AE016777) glycine betaine/carnitine/choline ABC transporter, periplasmic binding protein, putative [Pseudomonas putida KT2440]
                           324
                           51.23
                           67.28
                           24
                           812.0
     

     
     
121474
                           gb|AAQ58870.1|
                           (AE016914) probable ABC transporter periplasmic binding protein [Chromobacterium violaceum ATCC 12472]
                           325
                           42.46
                           59.38
                           24
                           675.0
     

     






      

          
GC ORFID: 45398How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3889Glimmer Score: 

          
Start: 3783548Stop: 3784483

          
Length: 936


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA3889 translation of PA3889Homolog Bit Score 609.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5421 (ORF: BLASTX 324.0), t_PA3889 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACCGACTGATCCGCTCACTCTGCCTGGCCTGCGCCGGCCTGCTCGCCGCCGGCCTGGCGCAGGCGGAA 
ACCCTGCGCATCGGCGGCAAGACCTTCACCGAGCAGCGCATCCTCACCGCCATCACCGCGCAGTTCCTGCAG 
AAGCGCGGCTACGACGTGACGGTCACCACCGGCCTGGGCAGCACCCTGGCCCGCGCCGCCCAGGAAAGCGGC 
CAACTGGATATCGTCTGGGAATACACCGGCTCGTCGCTGATCGTCTACAACCACATCGACGAGAAGCTCGAC 
GCCGCGGCTTCCTACCGCCGGGTCAAGCAACTCGACGAAGCCCAGGGCCTGGTCTGGCTGAAGCCGACCCGC 
TTCAACAACACCTATGCCCTGGCCATGCCCGAGGAACAGGCCGAGCGCCTGGGCATCCAGAGCGTCAGCGAC 
CTCGCGCGGGTGCTCGCCGAACAGCAGGAGGCCGAGCCCGGGAGCACCCACCTGTTCGCCATGGACCCGGAG 
TTCGCCGGCCGCCCCGACGGCCTCGGCCCCATGAGCGAGCTGTACGGCCTGCACTTCACCCGCAACGACATC 
CGCCAGATGGACGCCGGGCTGGTCTACACCGCGCTGAAGAACCGCCAGGTGTTCCTCGGCCTCGTCTACACC 
ACCGACGGCCGCCTGAAGGATTTCAAGCTGCGCGTGCTGAAGGACGACAAGCAGTACTTCCCCTTCTACAAC 
GCCGCCCCGGTGGTGCGTAAGGAGGTCATGCAGCGCCATCCGGAGTTCGCCACGCTGTTCGATCCGATCATC 
GAGCGGCTCGACGACGCCACCATGCAGGCGCTCAACGCGCGGGTCGATATCGAGCAGCAGACGCCACAGAAG 
GTCGCCGCCGACTTCCTCCGCGAACACCGCCTGCTCGACGACGGCCAGGCCGGCCAGGGAGGTAGCCAGTAA