ViewGene
Locus Name:
GeneID:
Location:

GeneID:2828
TrivialName: PA14_44180
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_44180
PAO1 Ortholog Locus:PA1570
Sequence Length:882
Protein Length:293
Start: 3931937
Stop: 3931056
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04959.1|AE004585_7 (AE004585) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 290/293 (98%), Positives = 291/293 (99%)
Sequence:
ATGTCGGTATCCCATGCGCAGTTGAAGGCTTTCCATGCAGTCGCCGTGTACGGCAGCTTCACGCGCGCCGCC
GAGCGCCTGTTTCTCACCCAGCCGGCGGTTTCCGACCAGGTGCGCAAGCTGGAGGAGCGTTACGGCGTGCTG
CTGTTCCACCGTAACAAGCGCTCGGTGCGCCTGAGCGAACTGGGCGAGCGCCTGCTCGCGGTGACCCAGCGG
CTGTTCGCGATCGAGGCCGAGGCGGAGGAGCTGTTGTCCGCCTCCAGCGCCCTGCGGACCGGCACCCTGACC
CTGGCGGTGGATGCGCCGGTGCACGTATTGCCGCAGATCGCGCGTTTCTGCGAGCGCTATCCGGGTATCGCG
GTGCGGGTGGAGACCGGCAATACCGACGAGTCTCTGCAGCGACTGTTCAGCTACCAGGCCGACCTGGCCCTG
TTGGGCCGGGACGTCAGCGACGAGCGGTTGCTTTCGCTGACCCTGCGCAACGACCCGATCGTCGCCTTCGTT
TCGCTCAGCCATCCGTGGGCCGGGCGCGAGTCGATCCGCCTCGCCGATCTCGACGACATGCCGCTGGTGCTG
CGCGAGCAGGGCTCGGTGACCCGCCAGACCCTGGAGGAGGAGATGAGCCGCGCCGGCCTGCGGATCCGCCCG
GCGATCCAGGTCGAAGGCCGCGAGGCCTCGCGCGAGGCGGTGGTGGCGGGGATCGGCGTGGGGGTGGTGTCG
GCCGCGGAGTTCGGCGCCGACACGCGGGTCCATGCGCTGCCCATCGTCGATTGCCAGCGACGCCTGACCGAG
ACCCTGGTGTGCCTGCGCGAACAGCGCTCGCGGCGGATCGTCGAGACCTTCCTCGACCTGGTCGGCGAGGAC
CTGTCGGCGCCGAGCTAG
Translation:
MSVSHAQLKAFHAVAVYGSFTRAAERLFLTQPAVSDQVRKLEERYGVLLFHRNKRSVRLSELGERLLAVTQR
LFAIEAEAEELLSASSALRTGTLTLAVDAPVHVLPQIARFCERYPGIAVRVETGNTDESLQRLFSYQADLAL
LGRDVSDERLLSLTLRNDPIVAFVSLSHPWAGRESIRLADLDDMPLVLREQGSVTRQTLEEEMSRAGLRIRP
AIQVEGREASREAVVAGIGVGVVSAAEFGADTRVHALPIVDCQRRLTETLVCLREQRSRRIVETFLDLVGED
LSAPS*
AnnotationID:2836GeneID:2828
AnnotatorUID: diggins
Modification Date/Time: 2005-02-25 13:01:40
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, lysR family
Cell Localization:()
Synonyms:PA1570
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|AAN68156.1|AE016447_5 (AE016783) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 289

 Score =  459 bits (1182), Expect = e-129
 Identities = 239/287 (83%), Positives = 258/287 (89%)

>emb|CAC49375.1| (AL603645) putative transcriptional regulator, lysR family protein
           [Sinorhizobium meliloti]
          Length = 289

 Score =  268 bits (685), Expect = 3e-71
 Identities = 137/280 (48%), Positives = 189/280 (67%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.0% aligned
Score =  121 bits (304), Expect = 9e-29
Identities = 109/295 (36%), Positives = 153/295 (51%), Gaps = 12/295 (4%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues, 100.0% aligned
Score =  112 bits (281), Expect = 6e-26
Identities = 66/209 (31%), Positives = 98/209 (46%), Gaps = 6/209 (2%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues,  96.7% aligned
Score = 69.0 bits (169), Expect = 6e-13
Identities = 38/58 (65%), Positives = 44/58 (75%)







   
Genomic Context:






   
Comment:


















    ReferenceID:5659




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22802




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37233




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2828_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2828
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4574
                           PA1570_tr
                           translation of PA1570
                           293
                           98.97
                           99.31
                           0
                           1421.0
     

     
     
131495
                           gb|AAG04959.1|AE004585_7
                           (AE004585) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           293
                           98.97
                           99.31
                           0
                           1421.0
     

     
     
131496
                           gb|AAN68156.1|AE016447_5
                           (AE016783) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           293
                           81.56
                           88.39
                           4
                           1182.0
     

     
     
131497
                           emb|CAC49375.1|
                           (AL603645) putative transcriptional regulator, lysR family protein [Sinorhizobium meliloti]
                           298
                           47.31
                           65.77
                           14
                           680.0
     

     
     
4575
                           PA1309_tr
                           translation of PA1309
                           294
                           42.17
                           58.50
                           9
                           556.0
     

     






      

          
GC ORFID: 45830How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1570Glimmer Score: 

          
Start: 1021972Stop: 1022853

          
Length: 882


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA1570 translation of PA1570Homolog Bit Score 551.0

          
Other Homologs:  t_PA1309 (ORF: BLASTX 219.0), t_PA1570 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCGGTATCCCATGCGCAGTTGAAGGCTTTCCATGCAGTCGCCGTGTACGGCAGCTTCACGCGCGCCGCC 
GAGCGCCTGTTTCTCACCCAGCCGGCGGTTTCCGACCAGGTGCGCAAGCTGGAGGAGCGTTACGGCGTGCTG 
CTGTTCCACCGTAACAAGCGCTCGGTGCGCCTGAGCGAACTGGGCGAGCGCCTGCTCGCGGTGACCCAGCGG 
CTGTTCGCGATCGAGGCCGAGGCGGAGGAGCTGTTGTCCGCCTCCAGCGCCCTGCGGACCGGCACCCTGACC 
CTGGCGGTGGATGCGCCGGTGCACGTATTGCCGCAGATCGCGCGTTTCTGCGAGCGCTATCCGGGTATCGCG 
GTGCGGGTGGAGACCGGCAATACCGACGAGTCTCTGCAGCGACTGTTCAGCTACCAGGCCGACCTGGCCCTG 
TTGGGCCGGGACGTCAGCGACGAGCGGTTGCTTTCGCTGACCCTGCGCAACGACCCGATCGTCGCCTTCGTT 
TCGCTCAGCCATCCGTGGGCCGGGCGCGAGTCGATCCGCCTCGCCGATCTCGACGACATGCCGCTGGTGCTG 
CGCGAGCAGGGCTCGGTGACCCGCCAGACCCTGGAGGAGGAGATGAGCCGCGCCGGCCTGCGGATCCGCCCG 
GCGATCCAGGTCGAAGGCCGCGAGGCCTCGCGCGAGGCGGTGGTGGCGGGGATCGGCGTGGGGGTGGTGTCG 
GCCGCGGAGTTCGGCGCCGACACGCGGGTCCATGCGCTGCCCATCGTCGATTGCCAGCGACGCCTGACCGAG 
ACCCTGGTGTGCCTGCGCGAACAGCGCTCGCGGCGGATCGTCGAGACCTTCCTCGACCTGGTCGGCGAGGAC 
CTGTCGGCGCCGAGCTAG