ViewGene
Locus Name:
GeneID:
Location:

GeneID:1982
TrivialName: PA14_14100
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_14100
PAO1 Ortholog Locus:PA3858
Sequence Length:1026
Protein Length:341
Start: 1207659
Stop: 1208684
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07245.1|AE004803_1 (AE004803) probable amino acid-binding protein [Pseudomonas aeruginosa PAO1]
Identities = 339/341 (99%), Positives = 340/341 (99%)
Sequence:
ATGACAATAATGAAAGGTACCTGGCTGCTGCTGGCCGCCGTCTGCCTCGGCGCCAGCGCCACGGCCGAGGCC
GGTGCGACGCTGGATGCGGTGAAGCGCAAGGGCTACGTGCAGTGCGGCGTCAGCGACGGCCTGCCGGGGTTC
TCCTACGCCGACGCCAAGGGCCGTTTCAAGGGGCTCGACGTCGACATCTGCCGGGCGCTGGCCGCCGCGCTG
TTCGGCGACGCCGAGAAGGTGCGCTTCACCCCGCTGCCCGCCACCGAGCGGTTTTCGGCGTTGCAGTCCGGC
ACGGTCGACCTGCTGTCGCGCAACACCTCATGGACCAGCTCGCGGGATACCGCGCTGGGCATCCACTTCACC
GGCGTCACCTATTTCGACGGCCAGGGCTTCCTGGTCAATCGCAAGCTCGGCGTGTCCAGCGCCCGCGAACTG
AAGGACGCGACGGTGTGCATCCAGTCCGGCACCACCAACGAGCTGAACGTGGCGGACTACTTCCGGGCCCAC
GGCATCCGCTACAAGGCGGTGCTCGACGACAGCTACGAGAAGAGCGCCCGTGCCCTGGAGGCGGGGCAGTGC
GACGTGCTCAGCTCCGACCAGTCGCAGCTCTACGCCCAGCGCCTGAAGCTGGCCAAGCCGGACCAGTACGTG
GTGCTGCCGGAAGTGATCTCCAAGGAGCCGCTCGGCCCGGCCGTGCGGCAGGGCGACGAAGCCTGGTTCAAC
ATCGTCCGCTGGACCCTGTACGGCCTGCTCAACGCGGAGGAGCTGGGGGTCACCTcGAGCAACGTCGAGCGC
CAGGCCAGGGACAGCCGCAACCCGGACGTCGCCCGCCTGCTCGGCAGCGAGGGTGACGCCGGCAAGGACTTG
CAACTGCCGcgCgaCTGGGTGGTGCAGATGGTGCGCCAGGTCGGCAACTATGGCGAGATCTTCGCCCGCAAC
GTCGGCGACGGCAGCCCGCTGAAGATGCCGCGCGGCCTCAACGCGCAATGGAATCTCGGCGGCCTGCACTAT
GCGCCGCCGATCCGCTGA
Translation:
MTIMKGTWLLLAAVCLGASATAEAGATLDAVKRKGYVQCGVSDGLPGFSYADAKGRFKGLDVDICRALAAAL
FGDAEKVRFTPLPATERFSALQSGTVDLLSRNTSWTSSRDTALGIHFTGVTYFDGQGFLVNRKLGVSSAREL
KDATVCIQSGTTNELNVADYFRAHGIRYKAVLDDSYEKSARALEAGQCDVLSSDQSQLYAQRLKLAKPDQYV
VLPEVISKEPLGPAVRQGDEAWFNIVRWTLYGLLNAEELGVTSSNVERQARDSRNPDVARLLGSEGDAGKDL
QLPRDWVVQMVRQVGNYGEIFARNVGDGSPLKMPRGLNAQWNLGGLHYAPPIR*
AnnotationID:1991GeneID:1982
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 08:08:44
Gene Name:
Confidence Code:3
GeneProduct:Putative amino-acid ABC transporter binding protei
Cell Localization:()
Synonyms:yhdW
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:general amino acid ABC transporter, periplasmic binding protein
Functional Category Confidence Code:5
COGs:smart00062,cd00134,COG0834
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66921.1|AE016320_9 (AE016778) general amino acid ABC transporter, periplasmic binding
           protein [Pseudomonas putida KT2440]
          Length = 342

 Score =  476 bits (1226), Expect = e-134
 Identities = 224/342 (65%), Positives = 291/342 (85%), Gaps = 1/342 (0%)

>gb|AAN82474.1|AE016767_234 (AE016767) Putative amino-acid ABC transporter binding protein yhdW
           precursor [Escherichia coli CFT073]
          Length = 341

 Score =  446 bits (1146), Expect = e-124
 Identities = 210/333 (63%), Positives = 265/333 (79%)

>gb|AAN44768.1|AE015341_5 (AE015341) Putative amino-acid ABC transporter binding protein yhdW
           precursor [Shigella flexneri 2a str. 301]
          Length = 341

 Score =  440 bits (1131), Expect = e-123
 Identities = 208/333 (62%), Positives = 263/333 (78%)






 
Structural Features:
smart00062, PBPb, Bacterial periplasmic substrate-binding proteins; 
bacterial proteins, eukaryotic ones are in PBPe
CD-Length = 222 residues,  95.0% aligned
Score =  145 bits (366), Expect = 2e-35
Identities = 64/221 (28%), Positives = 100/221 (45%), Gaps = 11/221 (4%)

cd00134, PBPb, Bacterial periplasmic transport system
CD-Length = 218 residues,  96.3% aligned
Score =  127 bits (321), Expect = 4e-30
Identities = 65/221 (29%), Positives = 99/221 (44%), Gaps = 13/221 (5%)

COG0834, HisJ, ABC-type amino acid transport/signal transduction systems
CD-Length = 275 residues,  92.4% aligned
Score =  120 bits (301), Expect = 5e-28






   
Genomic Context:






   
Comment:
other possible gene name: aapJ


















    ReferenceID:3967




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21113




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31706




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1982_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1982
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3452
                           PA3858_tr
                           translation of PA3858
                           341
                           99.41
                           99.70
                           0
                           1751.0
     

     
     
105846
                           gb|AAG07245.1|AE004803_1
                           (AE004803) probable amino acid-binding protein [Pseudomonas aeruginosa PAO1]
                           341
                           99.41
                           99.70
                           0
                           1751.0
     

     
     
105847
                           gb|AAN66921.1|AE016320_9
                           (AE016778) general amino acid ABC transporter, periplasmic binding protein [Pseudomonas putida KT2440]
                           342
                           65.49
                           85.08
                           1
                           1228.0
     

     
     
105848
                           gb|AAO54780.1|
                           (AE016860) amino acid ABC transporter, periplasmic amino acid-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           342
                           64.03
                           82.74
                           1
                           1208.0
     

     
     
105849
                           gb|AAN82474.1|AE016767_234
                           (AE016767) Putative amino-acid ABC transporter binding protein yhdW precursor [Escherichia coli CFT073]
                           341
                           62.17
                           78.29
                           0
                           1145.0
     

     






      

          
GC ORFID: 44984How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3858Glimmer Score: 

          
Start: 3746279Stop: 3745254

          
Length: 1026


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3858 translation of PA3858Homolog Bit Score 679.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4387 (ORF: BLASTX 473.0), t_PA3858 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACAATAATGAAAGGTACCTGGCTGCTGCTGGCCGCCGTCTGCCTCGGCGCCAGCGCCACGGCCGAGGCC 
GGTGCGACGCTGGATGCGGTGAAGCGCAAGGGCTACGTGCAGTGCGGCGTCAGCGACGGCCTGCCGGGGTTC 
TCCTACGCCGACGCCAAGGGCCGTTTCAAGGGGCTCGACGTCGACATCTGCCGGGCGCTGGCCGCCGCGCTG 
TTCGGCGACGCCGAGAAGGTGCGCTTCACCCCGCTGCCCGCCACCGAGCGGTTTTCGGCGTTGCAGTCCGGC 
ACGGTCGACCTGCTGTCGCGCAACACCTCATGGACCAGCTCGCGGGATACCGCGCTGGGCATCCACTTCACC 
GGCGTCACCTATTTCGACGGCCAGGGCTTCCTGGTCAATCGCAAGCTCGGCGTGTCCAGCGCCCGCGAACTG 
AAGGACGCGACGGTGTGCATCCAGTCCGGCACCACCAACGAGCTGAACGTGGCGGACTACTTCCGGGCCCAC 
GGCATCCGCTACAAGGCGGTGCTCGACGACAGCTACGAGAAGAGCGCCCGTGCCCTGGAGGCGGGGCAGTGC 
GACGTGCTCAGCTCCGACCAGTCGCAGCTCTACGCCCAGCGCCTGAAGCTGGCCAAGCCGGACCAGTACGTG 
GTGCTGCCGGAAGTGATCTCCAAGGAGCCGCTCGGCCCGGCCGTGCGGCAGGGCGACGAAGCCTGGTTCAAC 
ATCGTCCGCTGGACCCTGTACGGCCTGCTCAACGCGGAGGAGCTGGGGGTCACCTcGAGCAACGTCGAGCGC 
CAGGCCAGGGACAGCCGCAACCCGGACGTCGCCCGCCTGCTCGGCAGCGAGGGTGACGCCGGCAAGGACTTG 
CAACTGCCGcgCgaCTGGGTGGTGCAGATGGTGCGCCAGGTCGGCAACTATGGCGAGATCTTCGCCCGCAAC 
GTCGGCGACGGCAGCCCGCTGAAGATGCCGCGCGGCCTCAACGCGCAATGGAATCTCGGCGGCCTGCACTAT 
GCGCCGCCGATCCGCTGA