ViewGene
Locus Name:
GeneID:
Location:

GeneID:2172
TrivialName: PA14_35920
AnnotatorUID: ericdeziel
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_35920
PAO1 Ortholog Locus:
Sequence Length:1659
Protein Length:552
Start: 3198054
Stop: 3196396
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAK01502.1| (AF241171) putative amino acid transport protein [Pseudomonas aeruginosa]
Identities = 550/552 (99%), Positives = 550/552 (99%) to gene #12 of PAGI-1 island.
Sequence:
ATGAAGAAGCTCCTTCCCCTGGCGTTGTCGCTGCACTCCGGCCTGCTGTCGGCCTCGCCCGCGTTGGACGCT
GGCCAGCGCCAGCCGCTCAACCTGCATGCCATCGGCATGTTCATGGTGTTCGTGCTGTTCACCCTGTGCATC
ACCTGGTGGGCGGCGCGACGGACCCATTCGACGGCGGATTTCTATAGCGCCGGTGGCGGTATCCGGGGCTGG
CAGAACGGCCTGGCGCTGGCCGGCGACTACATGTCCGCCTCCACGCTACTGGGAATCACCGCGCTCATCTAC
AGCTCCGGGATGGATGGCTACATCTATCTCATCGCCTTCTTCGCGGGCTGGCCGGTACTGCTGCTATTGATG
ACCGAGCGGCTGCGCAACCTGGGCCGCTTCACCTTCGCCGACATCACCTCGTACCGTCTCGACCAGGGCAAG
GTGCGCACCATGGCCGCCATCGGATCGCTGACCGTGGTGTGTTTCTACCTGGTGGCGCAGATGGTCGGGGCC
GGGCAGTTGATCAGGCTGCTGTTCGGCCTGGACTACCAGATCGCCCTGGTGATCGTCGGTGCGCTGATGATG
CTGTATGTGACCTTCGGCGGTATGGTGGCAACCACCTGGGTGCAGATCGTCAAGGCATTCCTGCTGCTGGTC
GGCGGCTCGCTGGTGCTGTTCCTGGCGATGCGCGAATTCGACTTCAGCTATGACAGGCTGGTCAGCCAGGCG
ATGGATAGCCATGCCCTGGGCGAACGCCTGCTGGCCCCTGGTGGCTTGCTGGCCGACCCGTTGACCGCGCTA
TCGCTGAGCCTGGGGCTGGTGTTCGGCACCGCCGGGCTGCCGCACATCCTGATGCGTTTCTTCACCGTCGGC
GATGCCCGGGAGGCGCGCAAGTCGGTGCTCTACGCCACCGGGTTCATCGGCTACTTCTTCAATGTCATTTTC
CTGCTGGGCCTGGCGTCGATCGTGATCGTCAGCCAGCAGCCCCGGTTCTTCGAGGGCGGGGAAGCGGGAGGC
AAGCTGCTGGGCGGGGGCAACATGGTGGTCATGCACCTGGCCCAGGCAGTGGGAGGCAACCTGCTGCTGGGC
TTCCTCTCCGCCGTGACCTTCGCCACCATCCTGGCCGTGGTGTCAGGCCTGGCCCTGGCCGGGGCGTCCGCT
ATCGCCCATGACCTGTATGCGCGGGTGATCATGAAGGGCGCGGCCAGCGAGGCGCAGGAGCTGCGGGTAACC
AAGCTGGCAACCCTGGGCCTTGGCTTGGTGGCGATAGCCCTGGGCATCGTGTTCGAGAACATCAACGTGGCC
TTCATGGTCGCCCTGGCCTTTGGCATCGCCGCTTCGGCCAACTTCCCGGTGCTGTTCCTGTCGATGTTCTGG
TCGGGGCTGACCACCCGTGGCGCGTTGGCCGGTGGCTACGTCGGGTTGTTCAGCGCCATGGGCTTCGTGGTT
TTCTCCAGGCTGGTGTGGGTGGATGTGTTGCACTTCGCCGAGCCGCTGTTCCCCTATACCCAGCCTGCGCTG
TTCTCCATGCCGTTGGCGTTCCTGGTGGCGTATGGCGTTTCCCGCCTGGACCGGACCACGCGGGCCATGGCG
GAAAGGGCAGCCTTCGCCGACCAGTACGTACGAGGCCAGACCGGCCTTGGTGCCAGCGGAGCCATAGACCAC
TGA
Translation:
MKKLLPLALSLHSGLLSASPALDAGQRQPLNLHAIGMFMVFVLFTLCITWWAARRTHSTADFYSAGGGIRGW
QNGLALAGDYMSASTLLGITALIYSSGMDGYIYLIAFFAGWPVLLLLMTERLRNLGRFTFADITSYRLDQGK
VRTMAAIGSLTVVCFYLVAQMVGAGQLIRLLFGLDYQIALVIVGALMMLYVTFGGMVATTWVQIVKAFLLLV
GGSLVLFLAMREFDFSYDRLVSQAMDSHALGERLLAPGGLLADPLTALSLSLGLVFGTAGLPHILMRFFTVG
DAREARKSVLYATGFIGYFFNVIFLLGLASIVIVSQQPRFFEGGEAGGKLLGGGNMVVMHLAQAVGGNLLLG
FLSAVTFATILAVVSGLALAGASAIAHDLYARVIMKGAASEAQELRVTKLATLGLGLVAIALGIVFENINVA
FMVALAFGIAASANFPVLFLSMFWSGLTTRGALAGGYVGLFSAMGFVVFSRLVWVDVLHFAEPLFPYTQPAL
FSMPLAFLVAYGVSRLDRTTRAMAERAAFADQYVRGQTGLGASGAIDH*
AnnotationID:2180GeneID:2172
AnnotatorUID: danlee
Modification Date/Time: 2005-10-11 17:05:48
Gene Name:PAGI-1(12)
Confidence Code:3
GeneProduct:Predicted symporter
Cell Localization:(4) Inner membrane protein
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG4147, pfam00474
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|12698388|gb|AAK01502.1|  putative amino acid transport protein [Pseudomonas aeruginosa]
     Length=552
     Score = 1063 bits (2748),  Expect = 0.0
     Identities = 550/552 (99%), Positives = 550/552 (99%), Gaps = 0/552 (0%)

gi|24984389|gb|AAN68405.1|  sodium:solute symporter family protein [Pseudomonas putida KT2440]
     Length=552
     Score = 1019 bits (2634),  Expect = 0.0
     Identities = 523/552 (94%), Positives = 537/552 (97%), Gaps = 0/552 (0%)








 
Structural Features:
COG4147, DhlC, Predicted symporter [General function prediction only].
             CD-Length = 529 residues, 100.0% aligned
             Score =  363 bits (933), Expect = 3e-101

pfam00474, SSF, Sodium:solute symporter family. 
             CD-Length = 406 residues, 100.0% aligned
             Score =  207 bits (528), Expect = 3e-54

COG0591, PutP, Na+/proline symporter.
             CD-Length = 493 residues,  98.6% aligned
             Score =  112 bits (282), Expect = 9e-26






   
Genomic Context:
Predicted gene #12 of the PAGI-1 island absent in PAO1 but present in a majority of pathogenic P. aeruginosa isolates.   
The PA14 island at this locus, from PA14_35860 to PA14_36030, corresponds to PAGI-1 genes 17 through 2, respectively.






   
Comment:
The first half of the PA14 island (from PA14_35700 through PA14_35850) diverges from PAGI-1 such that 
genes 18 through 51 are absent.  PA14 has 31 ORFs in 35368 bp (from PA14_35700 to PA14_36030), 
whereas PAGI-1 contains 51 ORFs in 51300 bp.


















    ReferenceID:4347




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21493




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:38203




  
Author/Investigator(s):
        Liang X, Pham XQ, Olson MV, Lory S.





  
Title:
        Identification of a genomic island present in the majority of pathogenic isolates of Pseudomonas aeruginosa.




  
PubMed:
        11208781


MedLine:
        




    
Source:
J Bacteriol. 2001 Feb;183(3):843-53.







    
Reference Type:Journal 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2172
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
114481
                           gb|AAK01502.1|
                           (AF241171) putative amino acid transport protein [Pseudomonas aeruginosa]
                           552
                           99.63
                           99.63
                           0
                           2748.0
     

     
     
114482
                           gb|AAN68405.1|AE016473_3
                           (AE016784) sodium:solute symporter family protein [Pseudomonas putida KT2440]
                           552
                           94.74
                           97.28
                           0
                           2634.0
     

     
     
114503
                           dbj|BAC49380.1|
                           (AP005950) blr4115 [Bradyrhizobium japonicum USDA 110]
                           563
                           58.61
                           73.71
                           11
                           1602.0
     

     
     
3715
                           PA3234_tr
                           translation of PA3234
                           558
                           57.88
                           74.55
                           13
                           1646.0
     

     
     
114486
                           gb|AAG06622.1|AE004746_6
                           (AE004746) probable sodium:solute symporter [Pseudomonas aeruginosa PAO1]
                           558
                           57.88
                           74.55
                           13
                           1646.0
     

     






      

          
GC ORFID: 45174How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: psyr_15may02_Scaffold5_revised_gene6391Glimmer Score: 

          
Start: 1755862Stop: 1757520

          
Length: 1659


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: psyr_15may02_Scaffold5_revised_gene6391 related to: gi|15598430|ref|NP_251924.1| (NC_002516) probable sodium:solute symporter [Pseudomonas aeruginosa] pir||F83241 probable sodium:solute symporter PA3234 [imported] - Pseudomonas aeruginosa (strain PAO1) gbHomolog Bit Score 646.0

          
Other Homologs:  t_PA3234 (ORF: BLASTX 637.0), psyr_15may02_Scaffold5_revised_gene6391 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAGAAGCTCCTTCCCCTGGCGTTGTCGCTGCACTCCGGCCTGCTGTCGGCCTCGCCCGCGTTGGACGCT 
GGCCAGCGCCAGCCGCTCAACCTGCATGCCATCGGCATGTTCATGGTGTTCGTGCTGTTCACCCTGTGCATC 
ACCTGGTGGGCGGCGCGACGGACCCATTCGACGGCGGATTTCTATAGCGCCGGTGGCGGTATCCGGGGCTGG 
CAGAACGGCCTGGCGCTGGCCGGCGACTACATGTCCGCCTCCACGCTACTGGGAATCACCGCGCTCATCTAC 
AGCTCCGGGATGGATGGCTACATCTATCTCATCGCCTTCTTCGCGGGCTGGCCGGTACTGCTGCTATTGATG 
ACCGAGCGGCTGCGCAACCTGGGCCGCTTCACCTTCGCCGACATCACCTCGTACCGTCTCGACCAGGGCAAG 
GTGCGCACCATGGCCGCCATCGGATCGCTGACCGTGGTGTGTTTCTACCTGGTGGCGCAGATGGTCGGGGCC 
GGGCAGTTGATCAGGCTGCTGTTCGGCCTGGACTACCAGATCGCCCTGGTGATCGTCGGTGCGCTGATGATG 
CTGTATGTGACCTTCGGCGGTATGGTGGCAACCACCTGGGTGCAGATCGTCAAGGCATTCCTGCTGCTGGTC 
GGCGGCTCGCTGGTGCTGTTCCTGGCGATGCGCGAATTCGACTTCAGCTATGACAGGCTGGTCAGCCAGGCG 
ATGGATAGCCATGCCCTGGGCGAACGCCTGCTGGCCCCTGGTGGCTTGCTGGCCGACCCGTTGACCGCGCTA 
TCGCTGAGCCTGGGGCTGGTGTTCGGCACCGCCGGGCTGCCGCACATCCTGATGCGTTTCTTCACCGTCGGC 
GATGCCCGGGAGGCGCGCAAGTCGGTGCTCTACGCCACCGGGTTCATCGGCTACTTCTTCAATGTCATTTTC 
CTGCTGGGCCTGGCGTCGATCGTGATCGTCAGCCAGCAGCCCCGGTTCTTCGAGGGCGGGGAAGCGGGAGGC 
AAGCTGCTGGGCGGGGGCAACATGGTGGTCATGCACCTGGCCCAGGCAGTGGGAGGCAACCTGCTGCTGGGC 
TTCCTCTCCGCCGTGACCTTCGCCACCATCCTGGCCGTGGTGTCAGGCCTGGCCCTGGCCGGGGCGTCCGCT 
ATCGCCCATGACCTGTATGCGCGGGTGATCATGAAGGGCGCGGCCAGCGAGGCGCAGGAGCTGCGGGTAACC 
AAGCTGGCAACCCTGGGCCTTGGCTTGGTGGCGATAGCCCTGGGCATCGTGTTCGAGAACATCAACGTGGCC 
TTCATGGTCGCCCTGGCCTTTGGCATCGCCGCTTCGGCCAACTTCCCGGTGCTGTTCCTGTCGATGTTCTGG 
TCGGGGCTGACCACCCGTGGCGCGTTGGCCGGTGGCTACGTCGGGTTGTTCAGCGCCATGGGCTTCGTGGTT 
TTCTCCAGGCTGGTGTGGGTGGATGTGTTGCACTTCGCCGAGCCGCTGTTCCCCTATACCCAGCCTGCGCTG 
TTCTCCATGCCGTTGGCGTTCCTGGTGGCGTATGGCGTTTCCCGCCTGGACCGGACCACGCGGGCCATGGCG 
GAAAGGGCAGCCTTCGCCGACCAGTACGTACGAGGCCAGACCGGCCTTGGTGCCAGCGGAGCCATAGACCAC 
TGA