ViewGene
Locus Name:
GeneID:
Location:

GeneID:2681
TrivialName: PA14_40550
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_40550
PAO1 Ortholog Locus:PA1853
Sequence Length:864
Protein Length:287
Start: 3621863
Stop: 3621000
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05242.1|AE004611_7 (AE004611) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 285/287 (99%), Positives = 287/287 (100%)
Sequence:
ATGGATATCGACCTCGCCCGTACCTTCCTGGAGATCGCCCGCAGCGGTAGTTTCGTCGCTGCCGCGGAACGC
CTGCACCTGACCCAGACGGCCGTCACCGCGCGCATCCAGAACCTCGAAGGGCAACTCGGCTGCCGGCTGTTC
GTGCGCAACCGCGCGGGCGCGCGCCTGACCGCCGACGGCGAACACTTCCTCGGCTACGCCAGCCAACTGGTG
CAGACCTGGGATGCGGCGCGACGCGACCTGCCGCTGCCGGACGGCTTCCGCAACCTGCTCAACCTCGGTGGC
GAGGTCAGCCTGTGCAATCCGTTGCTGCTGAACTGGATGCGGCGCCTGCGCGAGGCGATTCCCGGCCACGCC
GTGCGGGTCGAGATCGGCCAGGGCGCCGAACTGCTCAAGCAACTGGAGCAGGGCGCGCTGGACGCCGCGCTG
GTCTACCAGCCGGAATACTGGCCAGGGCTGCAGGTCGAGCAGTTGCTGGAGGAGAAGCTGGTGATGGTGCGT
TCCGTGGTATCCGCGGAGCCTTATCTCTATGTCGACTGGGGCCCGGATTTCCGCAGCCAGCACGATGCCGCG
CTGCCGGACCGGGCCAAGGCCGCGCTGGCCTGCAACCTCGGGCCGCTGGCCCTGCAGTACATCATGCAGAAC
GGCGGTAGCGGCTATTTCCGTACCCGGGTGGTGAGCAGCTACCTGGATGGCGGCACCCTGCAACGGGTCGAG
CAGGCGCCGGAGTTCGCCTACCCCACCTACCTGGTGTACTCCCGCGAGCGCCTGTCGCCGACCCTGCGCCAT
GCGTTCCAGTTGCTGCGCGAAGTGGTCCGCGAGGACAGCGACTGGTCGCAGCGCTGGGACTACGTGATCTGA
Translation:
MDIDLARTFLEIARSGSFVAAAERLHLTQTAVTARIQNLEGQLGCRLFVRNRAGARLTADGEHFLGYASQLV
QTWDAARRDLPLPDGFRNLLNLGGEVSLCNPLLLNWMRRLREAIPGHAVRVEIGQGAELLKQLEQGALDAAL
VYQPEYWPGLQVEQLLEEKLVMVRSVVSAEPYLYVDWGPDFRSQHDAALPDRAKAALACNLGPLALQYIMQN
GGSGYFRTRVVSSYLDGGTLQRVEQAPEFAYPTYLVYSRERLSPTLRHAFQLLREVVREDSDWSQRWDYVI*
AnnotationID:2689GeneID:2681
AnnotatorUID: diggins
Modification Date/Time: 2005-03-02 06:06:47
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA1853
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam00126,pfam03466
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67963.1|AE016428_11 (AE016782) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 288

 Score =  382 bits (982), Expect = e-105
 Identities = 187/288 (64%), Positives = 229/288 (79%), Gaps = 1/288 (0%)

>emb|CAC41464.1| (AL591782) PUTATIVE TRANSCRIPTION REGULATOR PROTEIN [Sinorhizobium
           meliloti]
          Length = 283

 Score =  229 bits (584), Expect = 1e-59
 Identities = 122/259 (47%), Positives = 166/259 (64%), Gaps = 5/259 (1%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  114 bits (286), Expect = 1e-26
Identities = 85/299 (28%), Positives = 125/299 (41%), Gaps = 22/299 (7%)

pfam03466, LysR_substrate, LysR substrate binding domain
CD-Length = 209 residues,  99.5% aligned
Score = 75.0 bits (184), Expect = 1e-14
Identities = 60/208 (28%), Positives = 81/208 (38%), Gaps = 19/208 (9%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues,  93.3% aligned
Score = 67.8 bits (166), Expect = 1e-12
Identities = 28/56 (50%), Positives = 35/56 (62%)







   
Genomic Context:






   
Comment:


















    ReferenceID:5365




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22510




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37048




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2681_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2681
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4401
                           PA1853_tr
                           translation of PA1853
                           287
                           99.30
                           99.99
                           0
                           1481.0
     

     
     
128157
                           gb|AAG05242.1|AE004611_7
                           (AE004611) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           287
                           99.30
                           99.99
                           0
                           1481.0
     

     
     
128158
                           emb|CAA98154.1|
                           (Z73914) ORF286 protein [Pseudomonas stutzeri]
                           287
                           70.03
                           80.48
                           1
                           1042.0
     

     
     
128159
                           gb|AAN67963.1|AE016428_11
                           (AE016782) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           288
                           64.93
                           79.51
                           1
                           984.0
     

     
     
128160
                           emb|CAC41464.1|
                           (AL591782) PUTATIVE TRANSCRIPTION REGULATOR PROTEIN [Sinorhizobium meliloti]
                           299
                           42.14
                           57.52
                           28
                           581.0
     

     






      

          
GC ORFID: 45683How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1853Glimmer Score: 

          
Start: 1332047Stop: 1332910

          
Length: 864


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1853 translation of PA1853Homolog Bit Score 575.0

          
Other Homologs:  t_PA1853 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGATATCGACCTCGCCCGTACCTTCCTGGAGATCGCCCGCAGCGGTAGTTTCGTCGCTGCCGCGGAACGC 
CTGCACCTGACCCAGACGGCCGTCACCGCGCGCATCCAGAACCTCGAAGGGCAACTCGGCTGCCGGCTGTTC 
GTGCGCAACCGCGCGGGCGCGCGCCTGACCGCCGACGGCGAACACTTCCTCGGCTACGCCAGCCAACTGGTG 
CAGACCTGGGATGCGGCGCGACGCGACCTGCCGCTGCCGGACGGCTTCCGCAACCTGCTCAACCTCGGTGGC 
GAGGTCAGCCTGTGCAATCCGTTGCTGCTGAACTGGATGCGGCGCCTGCGCGAGGCGATTCCCGGCCACGCC 
GTGCGGGTCGAGATCGGCCAGGGCGCCGAACTGCTCAAGCAACTGGAGCAGGGCGCGCTGGACGCCGCGCTG 
GTCTACCAGCCGGAATACTGGCCAGGGCTGCAGGTCGAGCAGTTGCTGGAGGAGAAGCTGGTGATGGTGCGT 
TCCGTGGTATCCGCGGAGCCTTATCTCTATGTCGACTGGGGCCCGGATTTCCGCAGCCAGCACGATGCCGCG 
CTGCCGGACCGGGCCAAGGCCGCGCTGGCCTGCAACCTCGGGCCGCTGGCCCTGCAGTACATCATGCAGAAC 
GGCGGTAGCGGCTATTTCCGTACCCGGGTGGTGAGCAGCTACCTGGATGGCGGCACCCTGCAACGGGTCGAG 
CAGGCGCCGGAGTTCGCCTACCCCACCTACCTGGTGTACTCCCGCGAGCGCCTGTCGCCGACCCTGCGCCAT 
GCGTTCCAGTTGCTGCGCGAAGTGGTCCGCGAGGACAGCGACTGGTCGCAGCGCTGGGACTACGTGATCTGA