ViewGene
Locus Name:
GeneID:
Location:

GeneID:2391
TrivialName: PA14_01980
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_01980
PAO1 Ortholog Locus:PA0159
Sequence Length:939
Protein Length:312
Start: 181628
Stop: 182566
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03549.1|AE004454_1 (AE004454) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 310/312 (99%), Positives = 311/312 (99%)
Sequence:
GTGGACACATTGCAAGGCATGCGCGTGTTTGCCAGGGTGGTGGACAGCGGCAGCTTCACTTCCGCCGCCCAG
GCCCTGGACCTGTCCACCGCGCAGGTATCGCGGCTGATCTCCGACCTGGAGGCGCACCTGCAGACGCGCCTG
CTGCACCGCACCACCCGGCGCCTGGCCCTGACCGAGGCCGGCGAGCGCTACCTGGAGCGGTGCCGCGGGATC
CTCGAGGACATCGAGGTCGCCGAGGCCGAAGCCGCCGGCGCGCACATCCGCCCCTGCGGCCGCTTGCGCGTG
CAGTCGCTGATGGGCATGGGCCAGCATCACCTGGTGCCGATGATCGCCCGCTACGGCGCACTGTTCCCCGAC
GTGGTGATCGAGCTGACCCTGTCCCAGCGCAACCCGGACATGCTCGAGGAAGGCCAGGACGTGCTGATCACC
GGCGAGCGCCAGTTGCCCGACTCGGAGTTCGTCGCCCAGCGCCTGGGCAGCATCCACAGTGTGCTCTGCGCC
AGTCCCGGCTACCTGCAACAGCACGGCGTGCCGCGCTCGGTGGACGACCTGGAGCGCCACGTCTGCCTGCGC
CTGCAGGATCCGGCCTACCCGGAGGGCTGGATCTTCGCCGACGAGCAGGGCGAGCGCACCGTCAGCCCGCAG
AACACCTTCATGGTCAATGTCGCCGAGGTCATGGCCCAGGCGGCCAAGGCCGACCTCGGCATCGCCCTGCTG
CCCAGCTACGTGGCGGCCGCGGCGCTGCGCAACGGCGAGCTGCTACGGGTGTTGCCCGGCCATGCCATGCAC
GAGCGGACCATCTATGCGCTGTATCCCTCGCGGCGTTACCTGGACGCGAAGATCCGCACCTGGGTCGATCTG
TTGCAACAGGAACTTCCCCAGGCATTCGCCCGCGACGAAACCACCATGCAAAGTTCAAGTTACTGGGCACAG
TGA
Translation:
MDTLQGMRVFARVVDSGSFTSAAQALDLSTAQVSRLISDLEAHLQTRLLHRTTRRLALTEAGERYLERCRGI
LEDIEVAEAEAAGAHIRPCGRLRVQSLMGMGQHHLVPMIARYGALFPDVVIELTLSQRNPDMLEEGQDVLIT
GERQLPDSEFVAQRLGSIHSVLCASPGYLQQHGVPRSVDDLERHVCLRLQDPAYPEGWIFADEQGERTVSPQ
NTFMVNVAEVMAQAAKADLGIALLPSYVAAAALRNGELLRVLPGHAMHERTIYALYPSRRYLDAKIRTWVDL
LQQELPQAFARDETTMQSSSYWAQ*
AnnotationID:2399GeneID:2391
AnnotatorUID: diggins
Modification Date/Time: 2005-03-23 07:07:05
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA0159
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam03466
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66886.1|AE016317_3 (AE016778) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 315

 Score =  320 bits (820), Expect = 7e-87
 Identities = 162/308 (52%), Positives = 215/308 (69%), Gaps = 2/308 (0%)

>gb|AAN69094.1|AE016543_3 (AE016787) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 310

 Score =  314 bits (805), Expect = 4e-85
 Identities = 158/310 (50%), Positives = 209/310 (67%), Gaps = 1/310 (0%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  145 bits (366), Expect = 6e-36
Identities = 104/302 (34%), Positives = 146/302 (48%), Gaps = 9/302 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  99.0% aligned
Score =  109 bits (273), Expect = 6e-25
Identities = 60/208 (28%), Positives = 89/208 (42%), Gaps = 3/208 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14577




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21931




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33514




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2391_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2391
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4038
                           PA0159_tr
                           translation of PA0159
                           312
                           99.35
                           99.67
                           0
                           1573.0
     

     
     
121404
                           gb|AAG03549.1|AE004454_1
                           (AE004454) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           312
                           99.03
                           99.67
                           0
                           1570.0
     

     
     
121405
                           gb|AAN66886.1|AE016317_3
                           (AE016778) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           315
                           51.11
                           68.25
                           3
                           814.0
     

     
     
121408
                           gb|AAO54743.1|
                           (AE016860) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           315
                           50.47
                           67.61
                           3
                           790.0
     

     
     
121406
                           gb|AAN69094.1|AE016543_3
                           (AE016787) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           312
                           50.32
                           66.98
                           2
                           802.0
     

     






      

          
GC ORFID: 45393How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0159Glimmer Score: 

          
Start: 5982967Stop: 5983905

          
Length: 939


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0159 translation of PA0159Homolog Bit Score 610.0

          
Other Homologs:  t_PA2838 (ORF: BLASTX 308.0), psyr_15may02_Scaffold3_revised_gene5010 (ORF: BLASTX 308.0), t_PA3895 (ORF: BLASTX 305.0), t_PA0876 (ORF: BLASTX 296.0), t_PA0159 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGACACATTGCAAGGCATGCGCGTGTTTGCCAGGGTGGTGGACAGCGGCAGCTTCACTTCCGCCGCCCAG 
GCCCTGGACCTGTCCACCGCGCAGGTATCGCGGCTGATCTCCGACCTGGAGGCGCACCTGCAGACGCGCCTG 
CTGCACCGCACCACCCGGCGCCTGGCCCTGACCGAGGCCGGCGAGCGCTACCTGGAGCGGTGCCGCGGGATC 
CTCGAGGACATCGAGGTCGCCGAGGCCGAAGCCGCCGGCGCGCACATCCGCCCCTGCGGCCGCTTGCGCGTG 
CAGTCGCTGATGGGCATGGGCCAGCATCACCTGGTGCCGATGATCGCCCGCTACGGCGCACTGTTCCCCGAC 
GTGGTGATCGAGCTGACCCTGTCCCAGCGCAACCCGGACATGCTCGAGGAAGGCCAGGACGTGCTGATCACC 
GGCGAGCGCCAGTTGCCCGACTCGGAGTTCGTCGCCCAGCGCCTGGGCAGCATCCACAGTGTGCTCTGCGCC 
AGTCCCGGCTACCTGCAACAGCACGGCGTGCCGCGCTCGGTGGACGACCTGGAGCGCCACGTCTGCCTGCGC 
CTGCAGGATCCGGCCTACCCGGAGGGCTGGATCTTCGCCGACGAGCAGGGCGAGCGCACCGTCAGCCCGCAG 
AACACCTTCATGGTCAATGTCGCCGAGGTCATGGCCCAGGCGGCCAAGGCCGACCTCGGCATCGCCCTGCTG 
CCCAGCTACGTGGCGGCCGCGGCGCTGCGCAACGGCGAGCTGCTACGGGTGTTGCCCGGCCATGCCATGCAC 
GAGCGGACCATCTATGCGCTGTATCCCTCGCGGCGTTACCTGGACGCGAAGATCCGCACCTGGGTCGATCTG 
TTGCAACAGGAACTTCCCCAGGCATTCGCCCGCGACGAAACCACCATGCAAAGTTCAAGTTACTGGGCACAG 
TGA