ViewGene
Locus Name:
GeneID:
Location:

GeneID:2439
TrivialName: PA14_06400
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_06400
PAO1 Ortholog Locus:PA0491
Sequence Length:927
Protein Length:308
Start: 564581
Stop: 563655
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03880.1|AE004486_9 (AE004486) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 307/308 (99%), Positives = 308/308 (100%)
Sequence:
ATGCTGCCCATGGCCCTGACCCTCCGCCAGGTTCGCTACTTCATCGCCACCGCCGAGTTCGGCCAGATCTCC
CAGGCCGCCATCCACCTGAACATCTCGCAGTCGGCGGTGACCAGCGCGATCCAGGAACTGGAGGGCATGCTC
GGCGTCGCCCTGTTCACCCGCACGGCCCAGGGCATGAACCTGACCGACAGCGGCCGGCACTTCCTCAACCAC
GCCTATTCGATCCAGCGCAGCGTCGACGACGCGCTCAACAGCCCGCAACCGGACACCCGGGTCGACGGCACC
CTGAAGGTCGCCGCCAGCTATACCGTGATGGGCTATTTCCTCCCCCACCACCTGCAACGCCTGGCGCAGTGG
TACCCGGAACTGGAGCTGCAACTGTTCGAGGACGAGCGCGCCAGCATCGAGCGCGGCCTCCTCGACGGTCGC
TACGACATCGCCGTGCTGCTCACCGGCAATCTCACCGAGCCCGGGATCGCCGCCGAAACCCTGTTCAACTCC
GAGCGCCGGTTGTGGCTGCCCAGCCGCCATCCGCTGGGTGAGAAGGCCGACCTGGGCCTGGCCGACGTGGCC
GGCGAGCCCTACATCATGCTCACCGTCGACGAGGCCGGGCAGAGCGCGCTGCGCTACTGGCAACAGAGCGGC
CACCGGCCGCAGGTGATCCTCCATACCAGTTCGGTGGAAGCGGTGCGCAGCATGGTCGCCAACGGCTCCGGC
GTGGCCATCCTCTCCGATCTGGTGTACCGGCCCTGGTCGCTGGAAGGCAAACGCATCGAGACGCTATCGCTG
GTCGACCCGGTGCCGTCGATGAGCGTCGGCCTGGCCTGGCGCCGCGACACCGAAGCGAGCGCCGGGATGCGC
GCGTTCCGCGAATACTTCCGCCAGTCGTTCCTCGCTCCGCAGCAAAGCAGCAGCCGGCGCTGA
Translation:
MLPMALTLRQVRYFIATAEFGQISQAAIHLNISQSAVTSAIQELEGMLGVALFTRTAQGMNLTDSGRHFLNH
AYSIQRSVDDALNSPQPDTRVDGTLKVAASYTVMGYFLPHHLQRLAQWYPELELQLFEDERASIERGLLDGR
YDIAVLLTGNLTEPGIAAETLFNSERRLWLPSRHPLGEKADLGLADVAGEPYIMLTVDEAGQSALRYWQQSG
HRPQVILHTSSVEAVRSMVANGSGVAILSDLVYRPWSLEGKRIETLSLVDPVPSMSVGLAWRRDTEASAGMR
AFREYFRQSFLAPQQSSSRR*
AnnotationID:2447GeneID:2439
AnnotatorUID: diggins
Modification Date/Time: 2005-03-27 17:05:52
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA0491
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|AAN68527.1|AE016484_9 (AE016784) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 305

 Score =  440 bits (1132), Expect = e-123
 Identities = 218/305 (71%), Positives = 259/305 (84%)

>gb|AAO56430.1| (AE016866) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 305

 Score =  438 bits (1127), Expect = e-122
 Identities = 216/305 (70%), Positives = 256/305 (83%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription] 
CD-Length = 297 residues,  99.7% aligned
Score =  154 bits (390), Expect = 1e-38
Identities = 103/301 (34%), Positives = 155/301 (51%), Gaps = 8/301 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  98.6% aligned
Score =  131 bits (331), Expect = 8e-32
Identities = 64/208 (30%), Positives = 102/208 (49%), Gaps = 3/208 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4881




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22027




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33795




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2439_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2439
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4094
                           PA0491_tr
                           translation of PA0491
                           308
                           99.67
                           99.99
                           0
                           1561.0
     

     
     
122581
                           gb|AAG03880.1|AE004486_9
                           (AE004486) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           308
                           99.67
                           99.99
                           0
                           1561.0
     

     
     
122582
                           gb|AAN68527.1|AE016484_9
                           (AE016784) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           308
                           70.77
                           84.09
                           3
                           1132.0
     

     
     
122583
                           gb|AAO56430.1|
                           (AE016866) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           308
                           70.12
                           83.11
                           3
                           1127.0
     

     
     
122584
                           dbj|BAB51837.1|
                           (AP003006) transcriptional regulator [Mesorhizobium loti]
                           310
                           44.19
                           59.35
                           11
                           582.0
     

     






      

          
GC ORFID: 45441How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0491Glimmer Score: 

          
Start: 6365923Stop: 6364997

          
Length: 927


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0491 translation of PA0491Homolog Bit Score 605.0

          
Other Homologs:  psyr_15may02_Scaffold16_revised_gene2584 (ORF: BLASTX 435.0), t_PA0491 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCTGCCCATGGCCCTGACCCTCCGCCAGGTTCGCTACTTCATCGCCACCGCCGAGTTCGGCCAGATCTCC 
CAGGCCGCCATCCACCTGAACATCTCGCAGTCGGCGGTGACCAGCGCGATCCAGGAACTGGAGGGCATGCTC 
GGCGTCGCCCTGTTCACCCGCACGGCCCAGGGCATGAACCTGACCGACAGCGGCCGGCACTTCCTCAACCAC 
GCCTATTCGATCCAGCGCAGCGTCGACGACGCGCTCAACAGCCCGCAACCGGACACCCGGGTCGACGGCACC 
CTGAAGGTCGCCGCCAGCTATACCGTGATGGGCTATTTCCTCCCCCACCACCTGCAACGCCTGGCGCAGTGG 
TACCCGGAACTGGAGCTGCAACTGTTCGAGGACGAGCGCGCCAGCATCGAGCGCGGCCTCCTCGACGGTCGC 
TACGACATCGCCGTGCTGCTCACCGGCAATCTCACCGAGCCCGGGATCGCCGCCGAAACCCTGTTCAACTCC 
GAGCGCCGGTTGTGGCTGCCCAGCCGCCATCCGCTGGGTGAGAAGGCCGACCTGGGCCTGGCCGACGTGGCC 
GGCGAGCCCTACATCATGCTCACCGTCGACGAGGCCGGGCAGAGCGCGCTGCGCTACTGGCAACAGAGCGGC 
CACCGGCCGCAGGTGATCCTCCATACCAGTTCGGTGGAAGCGGTGCGCAGCATGGTCGCCAACGGCTCCGGC 
GTGGCCATCCTCTCCGATCTGGTGTACCGGCCCTGGTCGCTGGAAGGCAAACGCATCGAGACGCTATCGCTG 
GTCGACCCGGTGCCGTCGATGAGCGTCGGCCTGGCCTGGCGCCGCGACACCGAAGCGAGCGCCGGGATGCGC 
GCGTTCCGCGAATACTTCCGCCAGTCGTTCCTCGCTCCGCAGCAAAGCAGCAGCCGGCGCTGA