ViewGene
Locus Name:
GeneID:
Location:

GeneID:2424
TrivialName: PA14_06260
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_06260
PAO1 Ortholog Locus:PA0479
Sequence Length:939
Protein Length:312
Start: 553523
Stop: 552585
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03868.1|AE004485_9 (AE004485) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 301/316 (95%), Positives = 305/316 (96%), Gaps = 4/316 (1%)
Sequence:
ATGCACGATTTCACCCTCCACGACCTCCAATGCTTCGACGCAGTGGTCGACGCCGGCGGCTTCCAGGCCGCC
GCACAGCGCCTGCACCGCTCCCATCCGGCGGTGTTCGCCGCCGTTGCCAGGCTGGAGCGCCAGCTCGGCCTG
GTGCTGCTGGAACGAGGCGGCTACCGGGTCGGCCTGACCGCCGCCGGTCGCGCCTTCCACCAGCGTGCCCAG
GCCCTGCTCTACGAACTGGAAGGGCTGCGGGGCCACGCCGCGCACCTGGCCCAGGGCGAGGAAAGCGAGCTG
CGCGTGGTACTGGGCGACCTCTGCCCGCCGCGCCCGGCCCTGGCGCTGCTCGCAGGGTTCTTCGGCAGCCAG
CCGCAGACCCGCCTGCAATTGCTGTTCGAAACCGTCAGCGGCCCGCTGGAGCGCCTGCTGGACGGCGAGGCC
GACCTGATCCTGCATCGCGTGGACAAGTCCGACCCACGCCTGGAATGGCTCGACCTGTGCAGGGTCGGGCTG
GTCCCGGTCATCGCACCGGGCCTGCTCGGCGATCCTCCGCCGCGACCGGTGCGCCCGGAACAACTGCGCCCC
TTCGCCCAGTGCGTGATGCGCGACAGCGCCCGCCATTCGCCGCCGACGGACTATTTCATGCTCGCCGGCGCG
CGACAGTGCAGCGTGCCGGACCAGCGAACGAAGAAAGAGATGATCCTCCAGGGCCTCGGCTGGGGGCACCTG
CCGGACTTCCTGGTCGACGAGGAACTGGCCGACGGCCGCCTGCTCGCCCTGGCCGGGCCGCATCTGCCAGGA
CGCAGCGAAGAGGTGGTGGCGGCGCGCCGGCGCGATCGCGCGCAGGGCCCGGTAGCGGAACGCCTGTGGGCG
TTCCTGCGGGACAACGCTACGACGTTGCGGGGGAAAAGCGGCGACAGGGCGGAGGGCGCCAGGCGTCCTCGG
TGA
Translation:
MHDFTLHDLQCFDAVVDAGGFQAAAQRLHRSHPAVFAAVARLERQLGLVLLERGGYRVGLTAAGRAFHQRAQ
ALLYELEGLRGHAAHLAQGEESELRVVLGDLCPPRPALALLAGFFGSQPQTRLQLLFETVSGPLERLLDGEA
DLILHRVDKSDPRLEWLDLCRVGLVPVIAPGLLGDPPPRPVRPEQLRPFAQCVMRDSARHSPPTDYFMLAGA
RQCSVPDQRTKKEMILQGLGWGHLPDFLVDEELADGRLLALAGPHLPGRSEEVVAARRRDRAQGPVAERLWA
FLRDNATTLRGKSGDRAEGARRPR*
AnnotationID:2432GeneID:2424
AnnotatorUID: diggins
Modification Date/Time: 2005-03-27 17:05:57
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA0479
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:
>dbj|BAB49604.1| (AP002999) probable transcriptional regulator [Mesorhizobium loti]
          Length = 307

 Score =  388 bits (997), Expect = e-107
 Identities = 190/298 (63%), Positives = 227/298 (76%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  106 bits (266), Expect = 3e-24
Identities = 85/301 (28%), Positives = 114/301 (37%), Gaps = 8/301 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  99.5% aligned
Score = 74.3 bits (182), Expect = 2e-14
Identities = 56/210 (26%), Positives = 73/210 (34%), Gaps = 6/210 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4851




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21997




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33782




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2424_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2424
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4075
                           PA0479_tr
                           translation of PA0479
                           316
                           95.25
                           96.51
                           4
                           1565.0
     

     
     
122170
                           gb|AAG03868.1|AE004485_9
                           (AE004485) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           316
                           95.25
                           96.51
                           4
                           1565.0
     

     
     
122171
                           dbj|BAB49604.1|
                           (AP002999) probable transcriptional regulator [Mesorhizobium loti]
                           315
                           61.26
                           73.01
                           11
                           993.0
     

     






      

          
GC ORFID: 45426How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0479Glimmer Score: 

          
Start: 6354865Stop: 6353927

          
Length: 939


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0479 translation of PA0479Homolog Bit Score 606.0

          
Other Homologs:  t_PA0479 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCACGATTTCACCCTCCACGACCTCCAATGCTTCGACGCAGTGGTCGACGCCGGCGGCTTCCAGGCCGCC 
GCACAGCGCCTGCACCGCTCCCATCCGGCGGTGTTCGCCGCCGTTGCCAGGCTGGAGCGCCAGCTCGGCCTG 
GTGCTGCTGGAACGAGGCGGCTACCGGGTCGGCCTGACCGCCGCCGGTCGCGCCTTCCACCAGCGTGCCCAG 
GCCCTGCTCTACGAACTGGAAGGGCTGCGGGGCCACGCCGCGCACCTGGCCCAGGGCGAGGAAAGCGAGCTG 
CGCGTGGTACTGGGCGACCTCTGCCCGCCGCGCCCGGCCCTGGCGCTGCTCGCAGGGTTCTTCGGCAGCCAG 
CCGCAGACCCGCCTGCAATTGCTGTTCGAAACCGTCAGCGGCCCGCTGGAGCGCCTGCTGGACGGCGAGGCC 
GACCTGATCCTGCATCGCGTGGACAAGTCCGACCCACGCCTGGAATGGCTCGACCTGTGCAGGGTCGGGCTG 
GTCCCGGTCATCGCACCGGGCCTGCTCGGCGATCCTCCGCCGCGACCGGTGCGCCCGGAACAACTGCGCCCC 
TTCGCCCAGTGCGTGATGCGCGACAGCGCCCGCCATTCGCCGCCGACGGACTATTTCATGCTCGCCGGCGCG 
CGACAGTGCAGCGTGCCGGACCAGCGAACGAAGAAAGAGATGATCCTCCAGGGCCTCGGCTGGGGGCACCTG 
CCGGACTTCCTGGTCGACGAGGAACTGGCCGACGGCCGCCTGCTCGCCCTGGCCGGGCCGCATCTGCCAGGA 
CGCAGCGAAGAGGTGGTGGCGGCGCGCCGGCGCGATCGCGCGCAGGGCCCGGTAGCGGAACGCCTGTGGGCG 
TTCCTGCGGGACAACGCTACGACGTTGCGGGGGAAAAGCGGCGACAGGGCGGAGGGCGCCAGGCGTCCTCGG 
TGA