ViewGene
Locus Name:
GeneID:
Location:

GeneID:3173
TrivialName: PA14_68070
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68070
PAO1 Ortholog Locus:PA5153
Sequence Length:753
Protein Length:250
Start: 6073485
Stop: 6074237
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08538.1|AE004928_4 (AE004928) probable periplasmic binding protein [Pseudomonas aeruginosa PAO1]
Identities = 250/250 (100%), Positives = 250/250 (100%)
Sequence:
ATGAAGAACTATAAGAAGATCCTGCTGGCCGCCGCTGCAACCCTGGCCTTCGCCCTCGACGCCAGCGCCGCC
GACAAGCTGCGCATCGGCACCGAAGGCGCCTACCCGCCCTTCAACGGCATCGATGCCAGCGGCCAGGCGGTC
GGCTTCGACCTCGACATCGGCAAGGCGCTGTGCGCCAAGATGAAGACCGAGTGCGAGGTGGTGACCTCCGAC
TGGGACGGCATCATCCCGGCGTTGAACGCCAAGAAGTTCGACTTCATCGTCGCGTCCATGTCGATCACCGAC
GAGCGCAAGCAGGCGGTCGACTTCACCGATCCCTACTACACCAACAAGCTGCAGTTCGTCGCGCCGAAGAGC
GTCGACTTCAAGACCGACAAGGACTCCCTGAAGGGCAAGGTGATCGGCGCCCAGCGCGCCACCATCGCCGGC
ACCTGGCTGGAAGACAACATGGCCGACGTGGTCACCATCAAGCTCTACGACACCCAGGAGAACGCCTACCTC
GACCTCTCCTCGGGGCGCCTGGACGGCGTGCTGGCCGACAAGTTCGTGCAGTACGACTGGCTGAAGAGCGAC
GCCGGCAAGGAGTTCGAGTTCAAGGGCGAACCGGTGTTCGACAACGACAAGATCGGTATCGCCGTGCGCAAG
GGCGACCCGCTGCGCGAGAAGCTCAACGCCGCGCTGAAGGAAATCGTCGCCGACGGTACCTACAAGAAGATC
AACGACAAGTACTTCCCCTTCAGCATCTATTGA
Translation:
MKNYKKILLAAAATLAFALDASAADKLRIGTEGAYPPFNGIDASGQAVGFDLDIGKALCAKMKTECEVVTSD
WDGIIPALNAKKFDFIVASMSITDERKQAVDFTDPYYTNKLQFVAPKSVDFKTDKDSLKGKVIGAQRATIAG
TWLEDNMADVVTIKLYDTQENAYLDLSSGRLDGVLADKFVQYDWLKSDAGKEFEFKGEPVFDNDKIGIAVRK
GDPLREKLNAALKEIVADGTYKKINDKYFPFSIY*
AnnotationID:3181GeneID:3173
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 13:01:30
Gene Name:
Confidence Code:3
GeneProduct:putative ABC transporter, periplasmic amino acid-binding protein
Cell Localization:()
Synonyms:PA5153
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00497,smart00062,cd00134
Secondary Functional Category(ies):amino acid transport and metabolism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65913.1|AE016219_6 (AE016775) amino acid ABC transporter, periplasmic amino
           acid-binding protein [Pseudomonas putida KT2440]
          Length = 250

 Score =  391 bits (1004), Expect = e-108
 Identities = 196/250 (78%), Positives = 216/250 (86%), Gaps = 2/250 (0%)

>gb|AAO58783.1| (AE016875) amino acid ABC transporter, periplasmic amino
           acid-binding protein [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 254

 Score =  372 bits (954), Expect = e-102
 Identities = 186/255 (72%), Positives = 220/255 (86%), Gaps = 8/255 (3%)

>dbj|BAB52062.1| (AP003007) ABC transporter, periplasmic amino acid-binding protein
           [Mesorhizobium loti]
          Length = 257

 Score =  249 bits (637), Expect = 8e-66
 Identities = 138/247 (55%), Positives = 165/247 (66%), Gaps = 6/247 (2%)








 
Structural Features:
pfam00497, SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3.
CD-Length = 224 residues, 100.0% aligned
Score =  217 bits (555), Expect = 9e-58
Identities = 100/224 (44%), Positives = 134/224 (59%), Gaps = 3/224 (1%)

smart00062, PBPb, Bacterial periplasmic substrate-binding proteins
CD-Length = 222 residues,  98.6% aligned
Score =  176 bits (448), Expect = 2e-45
Identities = 86/221 (38%), Positives = 123/221 (55%), Gaps = 3/221 (1%)

cd00134, PBPb, Bacterial periplasmic transport system
CD-Length = 218 residues, 100.0% aligned
Score =  162 bits (410), Expect = 5e-41
Identities = 83/221 (37%), Positives = 122/221 (55%), Gaps = 5/221 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6349




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23491




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34920




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3173_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3173
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5102
                           PA5153_tr
                           translation of PA5153
                           250
                           99.99
                           99.99
                           0
                           1287.0
     

     
     
143152
                           gb|AAG08538.1|AE004928_4
                           (AE004928) probable periplasmic binding protein [Pseudomonas aeruginosa PAO1]
                           250
                           99.99
                           99.99
                           0
                           1287.0
     

     
     
143153
                           gb|AAN65913.1|AE016219_6
                           (AE016775) amino acid ABC transporter, periplasmic amino acid-binding protein [Pseudomonas putida KT2440]
                           251
                           78.08
                           86.05
                           2
                           1006.0
     

     
     
143154
                           gb|AAO58783.1|
                           (AE016875) amino acid ABC transporter, periplasmic amino acid-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           256
                           72.26
                           85.93
                           8
                           964.0
     

     
     
143155
                           dbj|BAB52062.1|
                           (AP003007) ABC transporter, periplasmic amino acid-binding protein [Mesorhizobium loti]
                           257
                           55.25
                           66.53
                           7
                           647.0
     

     






      

          
GC ORFID: 46175How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5153Glimmer Score: 

          
Start: 5337171Stop: 5337923

          
Length: 753


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5153 translation of PA5153Homolog Bit Score 500.0

          
Other Homologs:  psyr_15may02_Scaffold6_revised_gene6951 (ORF: BLASTX 356.0), psyr_15may02_Scaffold8_revised_gene7808 (ORF: BLASTX 200.0), t_PA0888 (ORF: BLASTX 198.0), t_PA3865 (ORF: BLASTX 174.0), t_PA5153 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAGAACTATAAGAAGATCCTGCTGGCCGCCGCTGCAACCCTGGCCTTCGCCCTCGACGCCAGCGCCGCC 
GACAAGCTGCGCATCGGCACCGAAGGCGCCTACCCGCCCTTCAACGGCATCGATGCCAGCGGCCAGGCGGTC 
GGCTTCGACCTCGACATCGGCAAGGCGCTGTGCGCCAAGATGAAGACCGAGTGCGAGGTGGTGACCTCCGAC 
TGGGACGGCATCATCCCGGCGTTGAACGCCAAGAAGTTCGACTTCATCGTCGCGTCCATGTCGATCACCGAC 
GAGCGCAAGCAGGCGGTCGACTTCACCGATCCCTACTACACCAACAAGCTGCAGTTCGTCGCGCCGAAGAGC 
GTCGACTTCAAGACCGACAAGGACTCCCTGAAGGGCAAGGTGATCGGCGCCCAGCGCGCCACCATCGCCGGC 
ACCTGGCTGGAAGACAACATGGCCGACGTGGTCACCATCAAGCTCTACGACACCCAGGAGAACGCCTACCTC 
GACCTCTCCTCGGGGCGCCTGGACGGCGTGCTGGCCGACAAGTTCGTGCAGTACGACTGGCTGAAGAGCGAC 
GCCGGCAAGGAGTTCGAGTTCAAGGGCGAACCGGTGTTCGACAACGACAAGATCGGTATCGCCGTGCGCAAG 
GGCGACCCGCTGCGCGAGAAGCTCAACGCCGCGCTGAAGGAAATCGTCGCCGACGGTACCTACAAGAAGATC 
AACGACAAGTACTTCCCCTTCAGCATCTATTGA