ViewGene
Locus Name:
GeneID:
Location:

GeneID:3278
TrivialName: PA14_68700
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68700
PAO1 Ortholog Locus:PA5200
Sequence Length:744
Protein Length:247
Start: 6125606
Stop: 6124863
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08585.1|AE004933_1 (AE004933) two-component response regulator OmpR [Pseudomonas aeruginosa PAO1]
Identities = 247/247 (100%), Positives = 247/247 (100%)
Sequence:
ATGTCGAACCCTGCCGCCCTGGCCGAAGGTGAAAAGATCCTCGTCGTCGACGACGACGCCCGCCTGCGCCGC
CTGCTCGAACGTTTCCTCGACGAGCAGGGCTACCGCGTCCGCGCGGTGGAGAACACCGAGCAGATGGATCGC
CTTCTATCCCGCGAACTGTTCCAGCTGGTTGTGCTCGATCTGATGCTTCCCGGCGAGGACGGCCTCACTGCC
TGCCGCCGCCTGCGCGAACAGAACAACCAGGTGCCGATCATCATGCTCACCGCCAAGGGCGACGAGGGCAGC
CGCATCCAGGGCCTGGAACTGGGCGCCGACGACTACCTGGCCAAGCCGTTCAACCCGCGCGAACTGCTGGCG
CGGATCAAGGCCGTGCTGCGCCGCCAGGCGCCGCTGGTGCCCGGCGCGCCTGCCGGTGCCGACGAGGTGGTG
ACCTTCGGCGACTACCAGCTGTTCCTCGCCACCCGCGAACTGAAGAAGGGCGACGAGGTACACATGCTGACC
ACCGGCGAGTTCGCCGTGCTCAAGGCCCTGGTGCAGCACGCCCGCGAACCGCTGACCCGGGACAAGCTGATG
AACCTCGCCCGTGGCCGCGAGTGGGATGCCCTGGAGCGTTCCATCGACGTGCAGATCTCGCGCCTGCGCCGG
CTGATCGAGCCGGACCCGTCCAAGCCGCGCTATATCCAGACGGTCTGGGGTGTCGGCTACGTGTTCGTGCCG
GACGGCAACGCGCGCAAGGCCTGA
Translation:
MSNPAALAEGEKILVVDDDARLRRLLERFLDEQGYRVRAVENTEQMDRLLSRELFQLVVLDLMLPGEDGLTA
CRRLREQNNQVPIIMLTAKGDEGSRIQGLELGADDYLAKPFNPRELLARIKAVLRRQAPLVPGAPAGADEVV
TFGDYQLFLATRELKKGDEVHMLTTGEFAVLKALVQHAREPLTRDKLMNLARGREWDALERSIDVQISRLRR
LIEPDPSKPRYIQTVWGVGYVFVPDGNARKA*
AnnotationID:3286GeneID:3278
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 21:09:39
Gene Name:ompR
Confidence Code:2
GeneProduct:two-component response regulator OmpR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0745,cd00156,pfam00486
Secondary Functional Category(ies):transcriptional regulator
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65878.1|AE016215_13 (AE016774) DNA-binding response regulator OmpR [Pseudomonas putida
           KT2440]
          Length = 246

 Score =  406 bits (1044), Expect = e-113
 Identities = 203/246 (82%), Positives = 219/246 (89%)

>gb|AAO53873.1| (AE016857) DNA-binding response regulator OmpR [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 246

 Score =  399 bits (1024), Expect = e-110
 Identities = 203/242 (83%), Positives = 215/242 (88%)

>gb|AAD20723.1| (AF051157) response regulator homolog OmpR [Vibrio cholerae]
          Length = 240

 Score =  348 bits (894), Expect = 1e-95
 Identities = 172/238 (72%), Positives = 203/238 (85%)








 
Structural Features:
COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and 
a winged-helix DNA-binding domain 
[Signal transduction mechanisms / Transcription]
CD-Length = 229 residues,  99.6% aligned
Score =  221 bits (564), Expect = 7e-59
Identities = 103/232 (44%), Positives = 141/232 (60%), Gaps = 5/232 (2%)

cd00156, REC, Signal receiver domain
CD-Length = 113 residues, 100.0% aligned
Score =  122 bits (308), Expect = 3e-29
Identities = 57/113 (50%), Positives = 80/113 (70%)

pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal.
CD-Length = 75 residues, 100.0% aligned
Score = 74.8 bits (184), Expect = 9e-15
Identities = 28/78 (35%), Positives = 48/78 (61%), Gaps = 3/78 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6559




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23701




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34874




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3278_cdd.html


    		




 
URL:

















    ReferenceID:35761




  
Author/Investigator(s):
        Tow LA, Coyne VE.





  
Title:
        Cloning and characterisation of a novel ompB operon from Vibrio cholerae 569B.




  
PubMed:
        10023081


MedLine:
        




    
Source:
Biochim Biophys Acta. 1999 Feb 16;1444(2):269-75.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10023081

















    ReferenceID:35765




  
Author/Investigator(s):
        Wurtzel ET, Chou MY, Inouye M.





  
Title:
        Osmoregulation of gene expression. I. DNA sequence of the ompR gene of the ompB operon of Escherichia coli and characterization of its gene product.




  
PubMed:
        6292199


MedLine:
        




    
Source:
J Biol Chem. 1982 Nov 25;257(22):13685-91.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6292199









           
Homologs By Global Alignment 

           

       



     
Gene ID:3278
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5259
                           PA5200_tr
                           translation of PA5200
                           247
                           99.99
                           99.99
                           0
                           1250.0
     

     
     
147047
                           gb|AAG08585.1|AE004933_1
                           (AE004933) two-component response regulator OmpR [Pseudomonas aeruginosa PAO1]
                           247
                           99.99
                           99.99
                           0
                           1250.0
     

     
     
147048
                           gb|AAN65878.1|AE016215_13
                           (AE016774) DNA-binding response regulator OmpR [Pseudomonas putida KT2440]
                           247
                           82.18
                           88.66
                           1
                           1044.0
     

     
     
147049
                           gb|AAO53873.1|
                           (AE016857) DNA-binding response regulator OmpR [Pseudomonas syringae pv. tomato str. DC3000]
                           247
                           82.18
                           87.44
                           1
                           1023.0
     

     
     
147053
                           gb|AAN57593.1|AE015895_2
                           (AE015895) transcriptional regulatory protein OmpR [Shewanella oneidensis MR-1]
                           247
                           70.85
                           80.56
                           6
                           884.0
     

     






      

          
GC ORFID: 46280How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5200Glimmer Score: 

          
Start: 5389292Stop: 5388549

          
Length: 744


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5200 translation of PA5200Homolog Bit Score 486.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3175 (ORF: BLASTX 398.0), t_PA4101 (ORF: BLASTX 188.0), t_PA3192 (ORF: BLASTX 183.0), psyr_15may02_Scaffold3_revised_gene4416 (ORF: BLASTX 179.0), t_PA1157 (ORF: BLASTX 177.0), t_PA4983 (ORF: BLASTX 176.0), t_PA1799 (ORF: BLASTX 175.0), psyr_15may02_Scaffold5_revised_gene6430 (ORF: BLASTX 164.0), t_PA5200 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCGAACCCTGCCGCCCTGGCCGAAGGTGAAAAGATCCTCGTCGTCGACGACGACGCCCGCCTGCGCCGC 
CTGCTCGAACGTTTCCTCGACGAGCAGGGCTACCGCGTCCGCGCGGTGGAGAACACCGAGCAGATGGATCGC 
CTTCTATCCCGCGAACTGTTCCAGCTGGTTGTGCTCGATCTGATGCTTCCCGGCGAGGACGGCCTCACTGCC 
TGCCGCCGCCTGCGCGAACAGAACAACCAGGTGCCGATCATCATGCTCACCGCCAAGGGCGACGAGGGCAGC 
CGCATCCAGGGCCTGGAACTGGGCGCCGACGACTACCTGGCCAAGCCGTTCAACCCGCGCGAACTGCTGGCG 
CGGATCAAGGCCGTGCTGCGCCGCCAGGCGCCGCTGGTGCCCGGCGCGCCTGCCGGTGCCGACGAGGTGGTG 
ACCTTCGGCGACTACCAGCTGTTCCTCGCCACCCGCGAACTGAAGAAGGGCGACGAGGTACACATGCTGACC 
ACCGGCGAGTTCGCCGTGCTCAAGGCCCTGGTGCAGCACGCCCGCGAACCGCTGACCCGGGACAAGCTGATG 
AACCTCGCCCGTGGCCGCGAGTGGGATGCCCTGGAGCGTTCCATCGACGTGCAGATCTCGCGCCTGCGCCGG 
CTGATCGAGCCGGACCCGTCCAAGCCGCGCTATATCCAGACGGTCTGGGGTGTCGGCTACGTGTTCGTGCCG 
GACGGCAACGCGCGCAAGGCCTGA