ViewGene
Locus Name:
GeneID:
Location:

GeneID:2740
TrivialName: PA14_37940
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_37940
PAO1 Ortholog Locus:PA2054
Sequence Length:888
Protein Length:295
Start: 3386926
Stop: 3386039
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05442.1|AE004632_1 (AE004632) transcriptional regulator CynR [Pseudomonas aeruginosa PAO1]
Identities = 294/295 (99%), Positives = 295/295 (100%)
Sequence:
ATGCTGCTTCGCCACCTGCGCTACCTGCTCGCTGTCGCCGAGCATCGCAACTTCACCCGCGCCGCCGAGGCG
CTGCACGTTTCGCAGCCGACCCTGTCGCAGCAGGTGCGGCAACTGGAAGAGCAACTGCGCGTGCAATTGCTC
GACCGCTCCGGCAGGAGCGTGCGTCCCACCGATGCCGGCGAGTTGTACCTGCTTCATGCGCGGCGTGCCTTG
CGCGAGCTGGAAGCGGCGCAACGGGCGATCCACGAGGTGCGCGACCTCAGTCGCGGCCGCCTGCGCCTGGGC
ATGACGCCGACCTTCACCTGCTATCTGGTGGGCGCCCTGGTGGATCCGTTCAATCAGCGCTATCCAGGCATC
GAGTTGAGCCTCGAGGAGTTGCCCCAGGACGCCCTGGAGGCGGCGCTGATCGACGATCGCCTGGACCTTGGC
GTGGCCTTCAGCGAACCGGGTTCGCTGGAGATCGACAGCCAGCCGCTCTACCTGGAGCGCCTGGGCCTGGTG
CTGGGGGCGGAACACCCGGCGGCGGACGCACCGCTGGCCGCCGCAGCGCTGGCGGAGTTGCCGTTGGCGTTG
TTGCGCGACGACTTCGCCACGCGCCGGCACATCGACGCTTACCTGCGCCAGCAAGGGGTGACGGCGCGGGTG
GCGCTGGAGGCGAACTCGATCAGCGCCATCGTCGACGTGGTTCGCCGCGGACGGCTGGCCAGCATCCTGCCA
GAGGCGGTGGCGCGCCAGCAGGCCGGGTTGCGCTGCGTGGCGCTGCGGCCGGCGTTGCCGACCCGCCAGGTA
GCGCTGTTCTGGCGCCAGGGCAGCCATCCCGGCGCCGCGCGCCTGGCCTTCCAGGCCCTGGCGCTGGAACTC
GGCGCCGAGCTGGGCGACGCCTGA
Translation:
MLLRHLRYLLAVAEHRNFTRAAEALHVSQPTLSQQVRQLEEQLRVQLLDRSGRSVRPTDAGELYLLHARRAL
RELEAAQRAIHEVRDLSRGRLRLGMTPTFTCYLVGALVDPFNQRYPGIELSLEELPQDALEAALIDDRLDLG
VAFSEPGSLEIDSQPLYLERLGLVLGAEHPAADAPLAAAALAELPLALLRDDFATRRHIDAYLRQQGVTARV
ALEANSISAIVDVVRRGRLASILPEAVARQQAGLRCVALRPALPTRQVALFWRQGSHPGAARLAFQALALEL
GAELGDA*
AnnotationID:2748GeneID:2740
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 17:05:52
Gene Name:cynR
Confidence Code:2
GeneProduct:cyn operon transcriptional activator
Cell Localization:()
Synonyms:
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|AAG54687.1|AE005213_3 (AE005213) cyn operon positive regulator [Escherichia coli O157:H7
           EDL933]
          Length = 299

 Score =  269 bits (687), Expect = 2e-71
 Identities = 147/295 (49%), Positives = 198/295 (67%), Gaps = 1/295 (0%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  125 bits (315), Expect = 5e-30
Identities = 112/300 (37%), Positives = 148/300 (49%), Gaps = 8/300 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
CD-Length = 209 residues, 100.0% aligned
Score =  108 bits (272), Expect = 6e-25
Identities = 70/209 (33%), Positives = 100/209 (47%), Gaps = 4/209 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5483




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22627




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32652




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2740_cdd.html


    		




 
URL:

















    ReferenceID:34405




  
Author/Investigator(s):
        Lamblin AF, Fuchs JA.





  
Title:
        Expression and purification of the cynR regulatory gene product: CynR is a DNA-binding protein.




  
PubMed:
        8253686


MedLine:
        




    
Source:
J Bacteriol. 1993 Dec;175(24):7990-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8253686

















    ReferenceID:34406




  
Author/Investigator(s):
        Sung YC, Fuchs JA.





  
Title:
        The Escherichia coli K-12 cyn operon is positively regulated by a member of the lysR family.




  
PubMed:
        1592818


MedLine:
        




    
Source:
J Bacteriol. 1992 Jun;174(11):3645-50.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=1592818

















    ReferenceID:34407




  
Author/Investigator(s):
        Anderson PM, Sung YC, Fuchs JA.





  
Title:
        The cyanase operon and cyanate metabolism.




  
PubMed:
        2094285


MedLine:
        




    
Source:
FEMS Microbiol Rev. 1990 Dec;7(3-4):247-52.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2094285









           
Homologs By Global Alignment 

           

       



     
Gene ID:2740
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4473
                           PA2054_tr
                           translation of PA2054
                           295
                           99.66
                           99.99
                           0
                           1456.0
     

     
     
129538
                           gb|AAG05442.1|AE004632_1
                           (AE004632) transcriptional regulator CynR [Pseudomonas aeruginosa PAO1]
                           295
                           99.66
                           99.99
                           0
                           1456.0
     

     
     
129539
                           emb|CAE12405.1|
                           (BX571859) cyn operon transcriptional activator [Photorhabdus luminescens subsp. laumondii TTO1]
                           300
                           58.00
                           74.33
                           5
                           868.0
     

     
     
129540
                           gb|AAQ59556.1|
                           (AE016916) cyn operon transcriptional regulator [Chromobacterium violaceum ATCC 12472]
                           317
                           50.47
                           65.29
                           25
                           776.0
     

     
     
129541
                           gb|AAG54687.1|AE005213_3
                           (AE005213) cyn operon positive regulator [Escherichia coli O157:H7 EDL933]
                           299
                           49.16
                           66.22
                           4
                           687.0
     

     






      

          
GC ORFID: 45742How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2054Glimmer Score: 

          
Start: 1566985Stop: 1567872

          
Length: 888


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2054 translation of PA2054Homolog Bit Score 565.0

          
Other Homologs:  psyr_15may02_Scaffold8_revised_gene7558 (ORF: BLASTX 268.0), t_PA2054 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCTGCTTCGCCACCTGCGCTACCTGCTCGCTGTCGCCGAGCATCGCAACTTCACCCGCGCCGCCGAGGCG 
CTGCACGTTTCGCAGCCGACCCTGTCGCAGCAGGTGCGGCAACTGGAAGAGCAACTGCGCGTGCAATTGCTC 
GACCGCTCCGGCAGGAGCGTGCGTCCCACCGATGCCGGCGAGTTGTACCTGCTTCATGCGCGGCGTGCCTTG 
CGCGAGCTGGAAGCGGCGCAACGGGCGATCCACGAGGTGCGCGACCTCAGTCGCGGCCGCCTGCGCCTGGGC 
ATGACGCCGACCTTCACCTGCTATCTGGTGGGCGCCCTGGTGGATCCGTTCAATCAGCGCTATCCAGGCATC 
GAGTTGAGCCTCGAGGAGTTGCCCCAGGACGCCCTGGAGGCGGCGCTGATCGACGATCGCCTGGACCTTGGC 
GTGGCCTTCAGCGAACCGGGTTCGCTGGAGATCGACAGCCAGCCGCTCTACCTGGAGCGCCTGGGCCTGGTG 
CTGGGGGCGGAACACCCGGCGGCGGACGCACCGCTGGCCGCCGCAGCGCTGGCGGAGTTGCCGTTGGCGTTG 
TTGCGCGACGACTTCGCCACGCGCCGGCACATCGACGCTTACCTGCGCCAGCAAGGGGTGACGGCGCGGGTG 
GCGCTGGAGGCGAACTCGATCAGCGCCATCGTCGACGTGGTTCGCCGCGGACGGCTGGCCAGCATCCTGCCA 
GAGGCGGTGGCGCGCCAGCAGGCCGGGTTGCGCTGCGTGGCGCTGCGGCCGGCGTTGCCGACCCGCCAGGTA 
GCGCTGTTCTGGCGCCAGGGCAGCCATCCCGGCGCCGCGCGCCTGGCCTTCCAGGCCCTGGCGCTGGAACTC 
GGCGCCGAGCTGGGCGACGCCTGA