ViewGene
Locus Name:
GeneID:
Location:

GeneID:2715
TrivialName: PA14_68420
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68420
PAO1 Ortholog Locus:PA5179
Sequence Length:921
Protein Length:306
Start: 6103138
Stop: 6104058
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08564.1|AE004931_1 (AE004931) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 287/291 (98%), Positives = 289/291 (99%)
Sequence:
ATGGACATCAAGCAACTGAAATTCCTCTGCGCCCTCGACGAAACCCGCCACTTCGGCCAGGCCGCCGCACGC
TGCCACGTCACCCAGCCGACCCTGTCCATGCGCCTGCGCAGCCTGGAAGAAGAACTCGGCCTGGAACTGGTG
CGACGCAGCCAACGCTTCGAAGGCTTCACCGAGGCCGGCGAGCGCGTACTGGCCTGGGCACGCAGCCTGCTG
GCGGCCCAGGAAGGGCTGTACGCGGAAGCCGCCGCCTGCCGCGGCCAACTGGTCGGGACCCTGCGCCTGGGC
GTGGTGCCGCTGGCCAGCTTCGACCCGATGCGCCTGGTCCAGCACATGGCCGGGCGCCACCCGGAGTTGCGT
TTCCAGCTCTATTCCCTGAGTTCGGAACAGGTACTCGAAGGCCTGGCGCGCAACCAGTTCGATCTCGGCGTC
TCTTATCTGGACCGTCTGGACCGCAGCCATTTCGAGGGCATCGAACTGGCGGAGACCCGCATGGGCCTGCTC
CATCATCCCAGCCATTTCCCGCTCGACGCCGCGCTGCTGAACTGGGATGCGCTGGCTGGCCTGCCGCTGGGC
CTGCTCTCGGCGGGCATGCACTTCCGCCAATCCATCGACCACAACTTCCGCAGCCGCGGGCTGAGCCCCATC
GCGCGCCTGGAAACCGACTCGGTGCAGCAACTGCTGCAGGCGGTGCAGCGTGGCTTGTGCTGCGCGATCATG
CCGTTGGGCAGCGAAGTCGACGACGAGTTGCGCCTGGTCCCCATCGAGGACGCCCATACCCTGGCAGCGCTC
GGCCTGATCATTCGCAGCGGACAGCCGCGCTCGGCGCTGGCCGAAGCCTGCTTCGAGGAGGCCCGGACCTGG
CTGGCGCCCGCCGGCTTGATAGACCCTGTCGATCAGGGTATCGGCACAACCGATTAG
Translation:
MDIKQLKFLCALDETRHFGQAAARCHVTQPTLSMRLRSLEEELGLELVRRSQRFEGFTEAGERVLAWARSLL
AAQEGLYAEAAACRGQLVGTLRLGVVPLASFDPMRLVQHMAGRHPELRFQLYSLSSEQVLEGLARNQFDLGV
SYLDRLDRSHFEGIELAETRMGLLHHPSHFPLDAALLNWDALAGLPLGLLSAGMHFRQSIDHNFRSRGLSPI
ARLETDSVQQLLQAVQRGLCCAIMPLGSEVDDELRLVPIEDAHTLAALGLIIRSGQPRSALAEACFEEARTW
LAPAGLIDPVDQGIGTTD*
AnnotationID:2723GeneID:2715
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 16:04:24
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA5179
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|AAO58827.1| (AE016875) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 293

 Score =  372 bits (954), Expect = e-102
 Identities = 194/285 (68%), Positives = 221/285 (77%), Gaps = 3/285 (1%)

>gb|AAN70174.1|AE016656_9 (AE016791) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 295

 Score =  372 bits (954), Expect = e-102
 Identities = 187/289 (64%), Positives = 229/289 (79%), Gaps = 3/289 (1%)

>dbj|BAC62304.1| (AP005087) putative transcriptional regulator [Vibrio
           parahaemolyticus]
          Length = 294

 Score =  338 bits (867), Expect = 2e-92
 Identities = 168/289 (58%), Positives = 228/289 (78%), Gaps = 3/289 (1%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  99.0% aligned
Score =  113 bits (282), Expect = 3e-26
Identities = 92/298 (30%), Positives = 132/298 (44%), Gaps = 10/298 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues, 100.0% aligned
Score = 98.9 bits (246), Expect = 6e-22
Identities = 58/210 (27%), Positives = 89/210 (42%), Gaps = 6/210 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5433




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22578




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34894




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2715_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2715
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4442
                           PA5179_tr
                           translation of PA5179
                           306
                           93.79
                           94.44
                           13
                           1468.0
     

     
     
129077
                           gb|AAG08564.1|AE004931_1
                           (AE004931) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           306
                           93.79
                           94.44
                           13
                           1468.0
     

     
     
129078
                           gb|AAO58827.1|
                           (AE016875) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           313
                           62.61
                           71.24
                           27
                           951.0
     

     
     
129079
                           gb|AAN70174.1|AE016656_9
                           (AE016791) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           309
                           60.51
                           74.43
                           17
                           952.0
     

     
     
129080
                           dbj|BAC62304.1|
                           (AP005087) putative transcriptional regulator [Vibrio parahaemolyticus]
                           309
                           54.36
                           73.78
                           18
                           863.0
     

     






      

          
GC ORFID: 45717How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5179Glimmer Score: 

          
Start: 5366824Stop: 5367744

          
Length: 921


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA5179 translation of PA5179Homolog Bit Score 570.0

          
Other Homologs:  psyr_15may02_Scaffold14_revised_gene2293 (ORF: BLASTX 373.0), t_PA5179 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGACATCAAGCAACTGAAATTCCTCTGCGCCCTCGACGAAACCCGCCACTTCGGCCAGGCCGCCGCACGC 
TGCCACGTCACCCAGCCGACCCTGTCCATGCGCCTGCGCAGCCTGGAAGAAGAACTCGGCCTGGAACTGGTG 
CGACGCAGCCAACGCTTCGAAGGCTTCACCGAGGCCGGCGAGCGCGTACTGGCCTGGGCACGCAGCCTGCTG 
GCGGCCCAGGAAGGGCTGTACGCGGAAGCCGCCGCCTGCCGCGGCCAACTGGTCGGGACCCTGCGCCTGGGC 
GTGGTGCCGCTGGCCAGCTTCGACCCGATGCGCCTGGTCCAGCACATGGCCGGGCGCCACCCGGAGTTGCGT 
TTCCAGCTCTATTCCCTGAGTTCGGAACAGGTACTCGAAGGCCTGGCGCGCAACCAGTTCGATCTCGGCGTC 
TCTTATCTGGACCGTCTGGACCGCAGCCATTTCGAGGGCATCGAACTGGCGGAGACCCGCATGGGCCTGCTC 
CATCATCCCAGCCATTTCCCGCTCGACGCCGCGCTGCTGAACTGGGATGCGCTGGCTGGCCTGCCGCTGGGC 
CTGCTCTCGGCGGGCATGCACTTCCGCCAATCCATCGACCACAACTTCCGCAGCCGCGGGCTGAGCCCCATC 
GCGCGCCTGGAAACCGACTCGGTGCAGCAACTGCTGCAGGCGGTGCAGCGTGGCTTGTGCTGCGCGATCATG 
CCGTTGGGCAGCGAAGTCGACGACGAGTTGCGCCTGGTCCCCATCGAGGACGCCCATACCCTGGCAGCGCTC 
GGCCTGATCATTCGCAGCGGACAGCCGCGCTCGGCGCTGGCCGAAGCCTGCTTCGAGGAGGCCCGGACCTGG 
CTGGCGCCCGCCGGCTTGATAGACCCTGTCGATCAGGGTATCGGCACAACCGATTAG