ViewGene
Locus Name:
GeneID:
Location:

GeneID:2366
TrivialName: PA14_70560
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70560
PAO1 Ortholog Locus:PA5344
Sequence Length:933
Protein Length:310
Start: 6284966
Stop: 6285898
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08729.1|AE004946_13 (AE004946) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 310/310 (100%), Positives = 310/310 (100%)
Sequence:
ATGACCCTCACCGAACTGCGCTACATCGTCACCCTCGCCCAGGAACAACACTTCGGCCGCGCCGCCGAGCGT
TGCCACGTCAGCCAACCGACCCTCTCGGTCGGCGTGAAGAAGCTCGAGGACGAGCTGGGGGTGCTGATCTTC
GAGCGCAGCAAGAGCGCCGTGCGCCTGACGCCAGTGGGCGAAGGCATCGTCGCCCAGGCGCAGAAGGTCCTC
GAACAGGCCCAGGGCATCCGCGAGCTGGCCCAGGCCGGCAAGAACCAGCTGGCCGCGCCGCTGAAGGTCGGC
GCCATCTACACCATCGGTCCCTACCTGTTCCCGCACCTGATTCCCCAGCTGCACCGGGTCGCGCCGCAGATG
CCGCTGTACATCGAGGAGAACTTCACCCATATCCTCCGCGACAAGCTGCGCACCGGCGAACTCGACGCGATC
ATCATCGCCCTGCCGTTCCAGGAAGCCGACGTCCTGACCAAGCCGCTGTTCGACGAGCCTTTCTATGTGCTG
ATGCCGGCCGACCACCCCTGGACCGCCAAGGCCAGCATCGATTCCGAGCTGCTCAACGACAAGAGCCTGCTC
CTGCTCGGCGAAGGCCACTGCTTCCGCGACCAGGTGCTGGAAGCCTGCCCGACCGTGCGCAAGGGCGACGAG
AACAAGCACACCACGGTGGAGTCCTCGTCGCTGGAGACCATCCGCCACATGGTCGCCTCCGGACTGGGCGTC
TCGGTGCTGCCGTTCTCCGCGGTGGACAGCCACCACTACGCCCCGGGCGTCATCGAAGTGCGCCCGTTCAGC
GCGCCGGTGCCGTTCCGTACCGTTGCCATCGCCTGGCGCGCCAGCTTCCCGCGTCCACGCGCCATCGAAGTG
CTGGCCGACTCGATCCGCCTGTGCTCGGTGGCCCGCCCGCAAACCCAGGAACAACCGCAAATCGCATGA
Translation:
MTLTELRYIVTLAQEQHFGRAAERCHVSQPTLSVGVKKLEDELGVLIFERSKSAVRLTPVGEGIVAQAQKVL
EQAQGIRELAQAGKNQLAAPLKVGAIYTIGPYLFPHLIPQLHRVAPQMPLYIEENFTHILRDKLRTGELDAI
IIALPFQEADVLTKPLFDEPFYVLMPADHPWTAKASIDSELLNDKSLLLLGEGHCFRDQVLEACPTVRKGDE
NKHTTVESSSLETIRHMVASGLGVSVLPFSAVDSHHYAPGVIEVRPFSAPVPFRTVAIAWRASFPRPRAIEV
LADSIRLCSVARPQTQEQPQIA*
AnnotationID:2374GeneID:2366
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 19:07:34
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA5344
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|AAO53620.1| (AE016856) oxidative stress regulatory protein OxyR, putative
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 307

 Score =  543 bits (1399), Expect = e-154
 Identities = 270/303 (89%), Positives = 285/303 (94%), Gaps = 1/303 (0%)

>gb|AAN70874.1|AE016731_9 (AE016794) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 308

 Score =  540 bits (1392), Expect = e-153
 Identities = 271/308 (87%), Positives = 287/308 (93%), Gaps = 2/308 (0%)

>emb|CAE33430.1| (BX640445) probable LysR-family transcriptional regulator
           [Bordetella bronchiseptica]
          Length = 317

 Score =  328 bits (841), Expect = 2e-89
 Identities = 163/301 (54%), Positives = 215/301 (71%), Gaps = 3/301 (0%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  97.0% aligned
Score =  146 bits (369), Expect = 2e-36
Identities = 92/296 (31%), Positives = 142/296 (47%), Gaps = 10/296 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  98.1% aligned
Score =  128 bits (323), Expect = 8e-31
Identities = 65/209 (31%), Positives = 97/209 (46%), Gaps = 4/209 (1%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues, 100.0% aligned
Score = 68.6 bits (168), Expect = 9e-13
Identities = 29/60 (48%), Positives = 41/60 (68%)







   
Genomic Context:






   
Comment:


















    ReferenceID:4735




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21881




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34740




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2366_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2366
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4008
                           PA5344_tr
                           translation of PA5344
                           310
                           99.99
                           99.99
                           0
                           1584.0
     

     
     
120953
                           gb|AAG08729.1|AE004946_13
                           (AE004946) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           310
                           99.99
                           99.99
                           0
                           1584.0
     

     
     
120955
                           gb|AAN70874.1|AE016731_9
                           (AE016794) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           311
                           87.13
                           92.28
                           4
                           1395.0
     

     
     
120954
                           gb|AAO53620.1|
                           (AE016856) oxidative stress regulatory protein OxyR, putative [Pseudomonas syringae pv. tomato str. DC3000]
                           311
                           86.81
                           91.63
                           5
                           1398.0
     

     
     
120959
                           emb|CAD16397.1|
                           (AL646071) PROBABLE HYDROGEN PEROXIDE-INDUCIBLE GENES ACTIVATOR TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum]
                           319
                           52.03
                           66.14
                           11
                           817.0
     

     






      

          
GC ORFID: 45368How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5344Glimmer Score: 

          
Start: 5548655Stop: 5549587

          
Length: 933


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5344 translation of PA5344Homolog Bit Score 614.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3949 (ORF: BLASTX 549.0), t_PA5344 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCCTCACCGAACTGCGCTACATCGTCACCCTCGCCCAGGAACAACACTTCGGCCGCGCCGCCGAGCGT 
TGCCACGTCAGCCAACCGACCCTCTCGGTCGGCGTGAAGAAGCTCGAGGACGAGCTGGGGGTGCTGATCTTC 
GAGCGCAGCAAGAGCGCCGTGCGCCTGACGCCAGTGGGCGAAGGCATCGTCGCCCAGGCGCAGAAGGTCCTC 
GAACAGGCCCAGGGCATCCGCGAGCTGGCCCAGGCCGGCAAGAACCAGCTGGCCGCGCCGCTGAAGGTCGGC 
GCCATCTACACCATCGGTCCCTACCTGTTCCCGCACCTGATTCCCCAGCTGCACCGGGTCGCGCCGCAGATG 
CCGCTGTACATCGAGGAGAACTTCACCCATATCCTCCGCGACAAGCTGCGCACCGGCGAACTCGACGCGATC 
ATCATCGCCCTGCCGTTCCAGGAAGCCGACGTCCTGACCAAGCCGCTGTTCGACGAGCCTTTCTATGTGCTG 
ATGCCGGCCGACCACCCCTGGACCGCCAAGGCCAGCATCGATTCCGAGCTGCTCAACGACAAGAGCCTGCTC 
CTGCTCGGCGAAGGCCACTGCTTCCGCGACCAGGTGCTGGAAGCCTGCCCGACCGTGCGCAAGGGCGACGAG 
AACAAGCACACCACGGTGGAGTCCTCGTCGCTGGAGACCATCCGCCACATGGTCGCCTCCGGACTGGGCGTC 
TCGGTGCTGCCGTTCTCCGCGGTGGACAGCCACCACTACGCCCCGGGCGTCATCGAAGTGCGCCCGTTCAGC 
GCGCCGGTGCCGTTCCGTACCGTTGCCATCGCCTGGCGCGCCAGCTTCCCGCGTCCACGCGCCATCGAAGTG 
CTGGCCGACTCGATCCGCCTGTGCTCGGTGGCCCGCCCGCAAACCCAGGAACAACCGCAAATCGCATGA