ViewGene
Locus Name:
GeneID:
Location:

GeneID:3049
TrivialName: PA14_13990
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_13990
PAO1 Ortholog Locus:PA3865
Sequence Length:792
Protein Length:263
Start: 1199242
Stop: 1200033
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07252.1|AE004803_8 (AE004803) probable amino acid binding protein [Pseudomonas aeruginosa PAO1]
Identities = 262/263 (99%), Positives = 262/263 (99%)
Sequence:
ATGATCAAGTCGCTGAACACCAAGAACCTGCTGGGAGGCCTGCTGCTCGGCGTGCTCGCCAGCGGATCCGCC
GTCGCCGCCGATGGCAACCTGCGGATCGGCATCGAGGCCGCCTACCCGCCGTTTTCCTTCAAGACCGCCGAA
GGCGAACTGGCCGGCTTCGACTACGACATCGGCAACGCACTGTGCGCGCAGATGCAGGTGAAGTGCCAGTGG
ATCGAGCAGGAGTACGACGGCCTGATTCCCTCGCTGAAAGTTCGCAAGATAGACGCCGCGCTGTCCTCCATC
ACCATCACCGAGGAGCGCCGGCGCTCGGTGGACTTCACCCACAAGTACTACTTCACGCCGGGCCGCCTGGTG
ATGAAGGAAGGCGCCCAGCTCGACGACAGCTTCAGCCAGTTGGCCGGCAAGCGCATCGGCGTGCAGCGCGGC
GCTACCGCCGACCGCTTCGCCAGTGCGGTGCTGGCCAAGGCCGGTGCCGAAGTGGTGCGCTACACCAGCCAG
GACGAGATCTACCTGGACCTGGTGGCCGGCCGCCTCGACGCCACCTTCGCCGACTCCATCCCGTTGCAGACC
GGCTTCCTCGATACCCCGCGCGGCAAGGGCTACGCCTTCGTCGGGCCGGAGTTCAAGGACCCGAAATACTTC
GGCGAGGGCGCTGGGATCGCGGTGCGCAAGGGGGACGCCGAGCTGGTCGGCAAGCTCAACGCGGCGATCGAC
GCGATTCGTGCCGACGGGACCTACAAGCGCATCGAGGGCAAGTACTTCAAGAGCGACATCTACGGCGACTGA
Translation:
MIKSLNTKNLLGGLLLGVLASGSAVAADGNLRIGIEAAYPPFSFKTAEGELAGFDYDIGNALCAQMQVKCQW
IEQEYDGLIPSLKVRKIDAALSSITITEERRRSVDFTHKYYFTPGRLVMKEGAQLDDSFSQLAGKRIGVQRG
ATADRFASAVLAKAGAEVVRYTSQDEIYLDLVAGRLDATFADSIPLQTGFLDTPRGKGYAFVGPEFKDPKYF
GEGAGIAVRKGDAELVGKLNAAIDAIRADGTYKRIEGKYFKSDIYGD*
AnnotationID:3057GeneID:3049
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 09:09:37
Gene Name:
Confidence Code:3
GeneProduct:putative amino acid ABC transporter
Cell Localization:()
Synonyms:PA3865
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:putative periplasmic basic amino acid-binding protein
Functional Category Confidence Code:5
COGs:pfam00497,smart00062,cd00134,COG0834
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70061.1|AE016645_7 (AE016790) basic amino acid ABC transporter, periplasmic basic
           amino acid-binding protein [Pseudomonas putida KT2440]
          Length = 261

 Score =  325 bits (832), Expect = 2e-88
 Identities = 162/253 (64%), Positives = 195/253 (77%), Gaps = 1/253 (0%)

>gb|AAG57439.1|AE005463_2 (AE005463) lysine-, arginine-, ornithine-binding periplasmic
           protein [Escherichia coli O157:H7 EDL933]
          Length = 260

 Score =  239 bits (611), Expect = 9e-63
 Identities = 112/251 (44%), Positives = 161/251 (64%), Gaps = 1/251 (0%)






 
Structural Features:
pfam00497, SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3.
CD-Length = 224 residues,  99.6% aligned
Score =  216 bits (551), Expect = 5e-57
Identities = 98/228 (42%), Positives = 132/228 (57%), Gaps = 6/228 (2%)

smart00062, PBPb, Bacterial periplasmic substrate-binding proteins; 
bacterial proteins, eukaryotic ones are in PBPe
CD-Length = 222 residues, 100.0% aligned
Score =  181 bits (460), Expect = 2e-46
Identities = 84/230 (36%), Positives = 123/230 (53%), Gaps = 8/230 (3%)

cd00134, PBPb, Bacterial periplasmic transport system
CD-Length = 218 residues, 100.0% aligned
Score =  166 bits (421), Expect = 6e-42
Identities = 84/226 (37%), Positives = 124/226 (54%), Gaps = 8/226 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6101




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23243




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31698




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3049_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3049
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4921
                           PA3865_tr
                           translation of PA3865
                           263
                           99.61
                           99.61
                           0
                           1334.0
     

     
     
139174
                           gb|AAG07252.1|AE004803_8
                           (AE004803) probable amino acid binding protein [Pseudomonas aeruginosa PAO1]
                           263
                           99.61
                           99.61
                           0
                           1334.0
     

     
     
139176
                           gb|AAC71070.1|
                           (AF012537) arginine and ornithine binding protein [Pseudomonas aeruginosa]
                           264
                           65.90
                           77.27
                           6
                           884.0
     

     
     
139175
                           gb|AAG04277.1|AE004523_5
                           (AE004523) arginine/ornithine binding protein AotJ [Pseudomonas aeruginosa PAO1]
                           264
                           65.90
                           77.27
                           6
                           884.0
     

     
     
4922
                           PA0888_tr
                           translation of PA0888
                           264
                           65.90
                           77.27
                           6
                           884.0
     

     






      

          
GC ORFID: 46051How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3865Glimmer Score: 

          
Start: 3754696Stop: 3753905

          
Length: 792


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3865 translation of PA3865Homolog Bit Score 518.0

          
Other Homologs:  t_PA0888 (ORF: BLASTX 345.0), psyr_15may02_Scaffold8_revised_gene7808 (ORF: BLASTX 317.0), t_PA2923 (ORF: BLASTX 229.0), psyr_15may02_Scaffold6_revised_gene6951 (ORF: BLASTX 175.0), t_PA5153 (ORF: BLASTX 174.0), t_PA3865 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGATCAAGTCGCTGAACACCAAGAACCTGCTGGGAGGCCTGCTGCTCGGCGTGCTCGCCAGCGGATCCGCC 
GTCGCCGCCGATGGCAACCTGCGGATCGGCATCGAGGCCGCCTACCCGCCGTTTTCCTTCAAGACCGCCGAA 
GGCGAACTGGCCGGCTTCGACTACGACATCGGCAACGCACTGTGCGCGCAGATGCAGGTGAAGTGCCAGTGG 
ATCGAGCAGGAGTACGACGGCCTGATTCCCTCGCTGAAAGTTCGCAAGATAGACGCCGCGCTGTCCTCCATC 
ACCATCACCGAGGAGCGCCGGCGCTCGGTGGACTTCACCCACAAGTACTACTTCACGCCGGGCCGCCTGGTG 
ATGAAGGAAGGCGCCCAGCTCGACGACAGCTTCAGCCAGTTGGCCGGCAAGCGCATCGGCGTGCAGCGCGGC 
GCTACCGCCGACCGCTTCGCCAGTGCGGTGCTGGCCAAGGCCGGTGCCGAAGTGGTGCGCTACACCAGCCAG 
GACGAGATCTACCTGGACCTGGTGGCCGGCCGCCTCGACGCCACCTTCGCCGACTCCATCCCGTTGCAGACC 
GGCTTCCTCGATACCCCGCGCGGCAAGGGCTACGCCTTCGTCGGGCCGGAGTTCAAGGACCCGAAATACTTC 
GGCGAGGGCGCTGGGATCGCGGTGCGCAAGGGGGACGCCGAGCTGGTCGGCAAGCTCAACGCGGCGATCGAC 
GCGATTCGTGCCGACGGGACCTACAAGCGCATCGAGGGCAAGTACTTCAAGAGCGACATCTACGGCGACTGA