ViewGene
Locus Name:
GeneID:
Location:

GeneID:1612
TrivialName: PA14_38110
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_38110
PAO1 Ortholog Locus:PA2042
Sequence Length:1230
Protein Length:409
Start: 3400120
Stop: 3398891
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05430.1|AE004630_7 (AE004630) probable transporter (membrane subunit) [Pseudomonas aeruginosa PAO1]
Identities = 406/409 (99%), Positives = 408/409 (99%)
Sequence:
ATGACATACCCTGAACGTCCCCTGCTTCATCTGCTGACGCGTACCAGCCTGGTGGGCCAGATCATCGTCGGC
CTGATCGCCGGCCTGCTGCTCGCCAGCTTCTTCCCGGCCGCCGCGCTCAAGGTCGGCTTCATCGGCAAGGTC
TTCGTTTCCGCGCTGAAGGCCGTCGCGCCGGTACTGGTGTTCGTCCTGGTGATGGCATCCATCGCCAACCAC
AGGCAAGGCCAGCAGACCCATATCCGGCCGATCCTGCTGCTGTACCTGGTCGGCACCTTCAGCGCCGCGGTG
GTGGCGGTGATCGCCAGCTTCGCCTTCCCCTCGAGCCTGGTGCTGGCCAGCCATCCGGGCGAGATGTCGCCT
CCGGGCGGCATCGCCGAGGTGCTCCAGTCCCTGCTGCTGAGCGTGGTGGACAACCCGGTCAACGCCCTGATC
TCGGCCAACTTCATCGGCATCCTGGCCTGGGCCATCGGCCTCGGCATCGCCTTCCGCCACGCCAGCGATACC
ACCCGCAACCTGCTCTCCGAGCTGTCCAACGGCGTCTCGCTGATCGTCAAGGTGGTGATCCGCTTCGCCCCG
CTGGGCATCTTCGGCCTGGTCGCCTCGACCTTCGCCGAGTCCGGCGTCGAGGCCCTGAAAGGCTATGCCCAC
CTGCTGGTGGTGTTGCTCGGCTGCATGCTGTTCGTGGCCTTCGTGGTCAACCCGCTGATCGTGTTCCTGAAG
ATCCGCCGCAATCCCTATCCGCTGGTGCTGACCTGCCTGCGCGAAAGCGGCATGACCGCCTTCTTCACCCGC
AGCTCGGCAGCCAATATCCCGGTCAACCTGCAGCTCTGCGAGCGCCTGGGCCTGCACGAAGACACCTATTCG
GTATCGATCCCGCTGGGCGCGACCATCAACATGGCCGGCGCAGCGATCACCATCACCGTGCTGACCCTGGCA
GCGGTGCATACCCTGGGCATCGCCGTGGACGTACCGACCGCGATCCTGCTCAGCGTGGTGGCGTCGGTCTGC
GCCTGCGGCGCATCCGGCGTGGCCGGCGGCTCGCTGCTGTTGATCCCGCTGGCCTGCAGCCTGTTCGGGATT
CCCAGCGAGGTGGCGATGCAGGTGGTAGCGGTAGGCTTCATCATCGCGATCCTCCAGGACTCCGCGGAGACG
GCGCTGAACTCCTCGACCGACGTGCTGTTCACCGCCGCCGCCTGCCTGGCGGAGGAGCGCAAGGCGAGCGCC
GCCTGA
Translation:
MTYPERPLLHLLTRTSLVGQIIVGLIAGLLLASFFPAAALKVGFIGKVFVSALKAVAPVLVFVLVMASIANH
RQGQQTHIRPILLLYLVGTFSAAVVAVIASFAFPSSLVLASHPGEMSPPGGIAEVLQSLLLSVVDNPVNALI
SANFIGILAWAIGLGIAFRHASDTTRNLLSELSNGVSLIVKVVIRFAPLGIFGLVASTFAESGVEALKGYAH
LLVVLLGCMLFVAFVVNPLIVFLKIRRNPYPLVLTCLRESGMTAFFTRSSAANIPVNLQLCERLGLHEDTYS
VSIPLGATINMAGAAITITVLTLAAVHTLGIAVDVPTAILLSVVASVCACGASGVAGGSLLLIPLACSLFGI
PSEVAMQVVAVGFIIAILQDSAETALNSSTDVLFTAAACLAEERKASAA*
AnnotationID:1621GeneID:1612
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 17:05:34
Gene Name:
Confidence Code:3
GeneProduct:putative transporter, sodium-dicarboxylate symporte
Cell Localization:()
Synonyms:ygjU
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:putative dicarboxylate permease
Functional Category Confidence Code:5
COGs:COG3633,pfam00375
Secondary Functional Category(ies):membrane proteins
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN68055.1|AE016438_1 (AE016783) transporter, sodium-dicarboxylate symporter family
           [Pseudomonas putida KT2440]
          Length = 403

 Score =  615 bits (1586), Expect = e-175
 Identities = 314/399 (78%), Positives = 356/399 (89%)

>gb|AAM87143.1|AE013962_6 (AE013962) Na/dicarboxylate symporter [Yersinia pestis KIM]
          Length = 439

 Score =  563 bits (1451), Expect = e-160
 Identities = 280/397 (70%), Positives = 346/397 (87%)

>gb|AAN82292.1|AE016767_52 (AE016767) Hypothetical symporter ygjU [Escherichia coli CFT073]
          Length = 414

 Score =  544 bits (1402), Expect = e-154
 Identities = 285/411 (69%), Positives = 342/411 (83%), Gaps = 2/411 (0%)








 
Structural Features:
COG3633, SstT, Na+/serine symporter 
[Amino acid transport and metabolism]
CD-Length = 407 residues, 100.0% aligned
Score =  585 bits (1509), Expect = 4e-168
Identities = 318/407 (78%), Positives = 363/407 (89%)

pfam00375, SDF, Sodium:dicarboxylate symporter family.
CD-Length = 400 residues, 100.0% aligned
Score =  271 bits (695), Expect = 9e-74
Identities = 125/402 (31%), Positives = 206/402 (51%), Gaps = 23/402 (5%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3227




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20374




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32657




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1612_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1612
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2853
                           PA2042_tr
                           translation of PA2042
                           409
                           99.26
                           99.75
                           0
                           1978.0
     

     
     
88935
                           gb|AAG05430.1|AE004630_7
                           (AE004630) probable transporter (membrane subunit) [Pseudomonas aeruginosa PAO1]
                           409
                           99.26
                           99.75
                           0
                           1978.0
     

     
     
88936
                           gb|AAN68055.1|AE016438_1
                           (AE016783) transporter, sodium-dicarboxylate symporter family [Pseudomonas putida KT2440]
                           409
                           77.26
                           87.53
                           6
                           1582.0
     

     
     
88939
                           gb|AAL22098.1|
                           (AE008848) putative dicarboxylate permease [Salmonella typhimurium LT2]
                           414
                           70.04
                           83.33
                           5
                           1443.0
     

     
     
88940
                           emb|CAD07749.1|
                           (AL627278) probable membrane transport protein [Salmonella enterica subsp. enterica serovar Typhi]
                           414
                           69.80
                           83.09
                           5
                           1439.0
     

     






      

          
GC ORFID: 44614How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2042Glimmer Score: 

          
Start: 1553790Stop: 1555019

          
Length: 1230


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2042 translation of PA2042Homolog Bit Score 766.0

          
Other Homologs:  t_PA2042 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACATACCCTGAACGTCCCCTGCTTCATCTGCTGACGCGTACCAGCCTGGTGGGCCAGATCATCGTCGGC 
CTGATCGCCGGCCTGCTGCTCGCCAGCTTCTTCCCGGCCGCCGCGCTCAAGGTCGGCTTCATCGGCAAGGTC 
TTCGTTTCCGCGCTGAAGGCCGTCGCGCCGGTACTGGTGTTCGTCCTGGTGATGGCATCCATCGCCAACCAC 
AGGCAAGGCCAGCAGACCCATATCCGGCCGATCCTGCTGCTGTACCTGGTCGGCACCTTCAGCGCCGCGGTG 
GTGGCGGTGATCGCCAGCTTCGCCTTCCCCTCGAGCCTGGTGCTGGCCAGCCATCCGGGCGAGATGTCGCCT 
CCGGGCGGCATCGCCGAGGTGCTCCAGTCCCTGCTGCTGAGCGTGGTGGACAACCCGGTCAACGCCCTGATC 
TCGGCCAACTTCATCGGCATCCTGGCCTGGGCCATCGGCCTCGGCATCGCCTTCCGCCACGCCAGCGATACC 
ACCCGCAACCTGCTCTCCGAGCTGTCCAACGGCGTCTCGCTGATCGTCAAGGTGGTGATCCGCTTCGCCCCG 
CTGGGCATCTTCGGCCTGGTCGCCTCGACCTTCGCCGAGTCCGGCGTCGAGGCCCTGAAAGGCTATGCCCAC 
CTGCTGGTGGTGTTGCTCGGCTGCATGCTGTTCGTGGCCTTCGTGGTCAACCCGCTGATCGTGTTCCTGAAG 
ATCCGCCGCAATCCCTATCCGCTGGTGCTGACCTGCCTGCGCGAAAGCGGCATGACCGCCTTCTTCACCCGC 
AGCTCGGCAGCCAATATCCCGGTCAACCTGCAGCTCTGCGAGCGCCTGGGCCTGCACGAAGACACCTATTCG 
GTATCGATCCCGCTGGGCGCGACCATCAACATGGCCGGCGCAGCGATCACCATCACCGTGCTGACCCTGGCA 
GCGGTGCATACCCTGGGCATCGCCGTGGACGTACCGACCGCGATCCTGCTCAGCGTGGTGGCGTCGGTCTGC 
GCCTGCGGCGCATCCGGCGTGGCCGGCGGCTCGCTGCTGTTGATCCCGCTGGCCTGCAGCCTGTTCGGGATT 
CCCAGCGAGGTGGCGATGCAGGTGGTAGCGGTAGGCTTCATCATCGCGATCCTCCAGGACTCCGCGGAGACG 
GCGCTGAACTCCTCGACCGACGTGCTGTTCACCGCCGCCGCCTGCCTGGCGGAGGAGCGCAAGGCGAGCGCC 
GCCTGA