ViewGene
Locus Name:
GeneID:
Location:

GeneID:2526
TrivialName: PA14_68550
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68550
PAO1 Ortholog Locus:PA5189
Sequence Length:909
Protein Length:302
Start: 6114488
Stop: 6115396
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08574.1|AE004932_1 (AE004932) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 302/302 (100%), Positives = 302/302 (100%)
Sequence:
GTGAATATCCAAACCTTCGACCTCAACCTGCTACGCGTCCTTGACGCCCTGCTGCGCGAACGCAACGTCTCG
CGCGCGGCGGAGCGCCTGGCGCTGAGCCAGCCGGCAGTGAGCAATGCACTGAACCGCCTGCGCGAGCTGCTC
GACGACCCGCTGCTGGTCCGCGCCGGTCGTGCGATGCAGCCGACGCCCCGGGCGCTGGCGCTGGAAGCGCCG
ATCCGCGCGGCGCTGCGGCAGATCGAACAGAGCCTGGGCGACGGCGAGGGCTTCGATCCCGGGCGCAGCCGG
CAGCGCTTCACCGTAGCGGTGACCGACTACGTCGAACTGATCTGCATGCCCGCCCTGATGCGCCGCCTGAGT
GAGCGGGCGCCGGGAATCTCCATCGCCATCCAGCACCTGACCCCGACCTTGCCGGCCGAGGCGCTGGACAAA
GGCGAACTGGACCTGGTGCTAGGCCGCTTCGAAAACGTCCCGGCGCGCTTCCAGCGCCGCCATTGGGCCAGC
GAGACCCTGCAACTGGTCGCCCGACGTCAGCACCCGCTGCTGGCGCAGGCTCCCGACCTGGCCACCTTCCTG
GAGCTGCAGCACCTGTGGGTGCACGGCGGGCAGACCAAGGGAATGGTCGACCAGTGGCTGGGCAGCCAGGGG
CTCAAGCGGCAAGTGGCCTACACCACGCCGAACTACCTGCAGGCAGCGCACATCGCCGCGTACAGCGACCTG
GTCGGCGTCCTGCCGCGACAACTGGCGCACTACTTCGAACGATTGCTGCCCCTGCAATCGTTCGACCTGCCG
TTCGACCTCGGCCCGTTCCACCTGGAACTGGTGTTTCTGGCCCAGCGCGAACGCGACATCGCCCTGCAATGG
CTGGTCGAACAGATCCGCCAGGTCGGGGCCGCCGGACCGGACTAG
Translation:
MNIQTFDLNLLRVLDALLRERNVSRAAERLALSQPAVSNALNRLRELLDDPLLVRAGRAMQPTPRALALEAP
IRAALRQIEQSLGDGEGFDPGRSRQRFTVAVTDYVELICMPALMRRLSERAPGISIAIQHLTPTLPAEALDK
GELDLVLGRFENVPARFQRRHWASETLQLVARRQHPLLAQAPDLATFLELQHLWVHGGQTKGMVDQWLGSQG
LKRQVAYTTPNYLQAAHIAAYSDLVGVLPRQLAHYFERLLPLQSFDLPFDLGPFHLELVFLAQRERDIALQW
LVEQIRQVGAAGPD*
AnnotationID:2534GeneID:2526
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 17:05:03
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA5189
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam03466,pfam00126
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67660.1|AE016396_2 (AE016781) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 307

 Score =  390 bits (1001), Expect = e-108
 Identities = 198/295 (67%), Positives = 231/295 (78%), Gaps = 2/295 (0%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  99.7% aligned
Score =  117 bits (293), Expect = 2e-27
Identities = 82/298 (27%), Positives = 119/298 (39%), Gaps = 3/298 (1%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
CD-Length = 209 residues,  99.5% aligned
Score = 90.1 bits (223), Expect = 3e-19
Identities = 49/208 (23%), Positives = 78/208 (37%), Gaps = 2/208 (0%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues,  98.3% aligned
Score = 65.1 bits (159), Expect = 9e-12
Identities = 27/59 (45%), Positives = 33/59 (55%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14615




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22201




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34864




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2526_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2526
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4213
                           PA5189_tr
                           translation of PA5189
                           302
                           99.99
                           99.99
                           0
                           1535.0
     

     
     
124314
                           gb|AAG08574.1|AE004932_1
                           (AE004932) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           302
                           99.66
                           99.99
                           0
                           1532.0
     

     
     
124315
                           gb|AAN67660.1|AE016396_2
                           (AE016781) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           310
                           63.87
                           75.16
                           11
                           998.0
     

     
     
4214
                           PA2121_tr
                           translation of PA2121
                           309
                           39.48
                           55.66
                           15
                           499.0
     

     
     
124316
                           gb|AAG05509.1|AE004639_7
                           (AE004639) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           309
                           39.48
                           55.66
                           15
                           499.0
     

     






      

          
GC ORFID: 45528How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5189Glimmer Score: 

          
Start: 5378174Stop: 5379082

          
Length: 909


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA5189 translation of PA5189Homolog Bit Score 595.0

          
Other Homologs:  t_PA2121 (ORF: BLASTX 194.0), t_PA5189 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGAATATCCAAACCTTCGACCTCAACCTGCTACGCGTCCTTGACGCCCTGCTGCGCGAACGCAACGTCTCG 
CGCGCGGCGGAGCGCCTGGCGCTGAGCCAGCCGGCAGTGAGCAATGCACTGAACCGCCTGCGCGAGCTGCTC 
GACGACCCGCTGCTGGTCCGCGCCGGTCGTGCGATGCAGCCGACGCCCCGGGCGCTGGCGCTGGAAGCGCCG 
ATCCGCGCGGCGCTGCGGCAGATCGAACAGAGCCTGGGCGACGGCGAGGGCTTCGATCCCGGGCGCAGCCGG 
CAGCGCTTCACCGTAGCGGTGACCGACTACGTCGAACTGATCTGCATGCCCGCCCTGATGCGCCGCCTGAGT 
GAGCGGGCGCCGGGAATCTCCATCGCCATCCAGCACCTGACCCCGACCTTGCCGGCCGAGGCGCTGGACAAA 
GGCGAACTGGACCTGGTGCTAGGCCGCTTCGAAAACGTCCCGGCGCGCTTCCAGCGCCGCCATTGGGCCAGC 
GAGACCCTGCAACTGGTCGCCCGACGTCAGCACCCGCTGCTGGCGCAGGCTCCCGACCTGGCCACCTTCCTG 
GAGCTGCAGCACCTGTGGGTGCACGGCGGGCAGACCAAGGGAATGGTCGACCAGTGGCTGGGCAGCCAGGGG 
CTCAAGCGGCAAGTGGCCTACACCACGCCGAACTACCTGCAGGCAGCGCACATCGCCGCGTACAGCGACCTG 
GTCGGCGTCCTGCCGCGACAACTGGCGCACTACTTCGAACGATTGCTGCCCCTGCAATCGTTCGACCTGCCG 
TTCGACCTCGGCCCGTTCCACCTGGAACTGGTGTTTCTGGCCCAGCGCGAACGCGACATCGCCCTGCAATGG 
CTGGTCGAACAGATCCGCCAGGTCGGGGCCGCCGGACCGGACTAG