ViewGene
Locus Name:
GeneID:
Location:

GeneID:2711
TrivialName: PA14_40440
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_40440
PAO1 Ortholog Locus:PA1859
Sequence Length:888
Protein Length:295
Start: 3613477
Stop: 3614364
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05248.1|AE004612_2 (AE004612) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 292/295 (98%), Positives = 293/295 (99%)
Sequence:
ATGAAAGCCAACTCCGATGAACTGCAAAGCTTCGTCAGTGTAGTCGACAGCGGTTCCATCAGCGCCGCCGCG
GAACAGATGGGACTGACCGCCTCGGCCGTCAGCCGGACCCTCTCGCGCCTCGAGCACAAGCTCGGCACCACC
CTGCTCAACCGCACCACCCGGCGCATGGAGCTGACCGAGGAAGGCCGCTACTTCCTCGACCAGGCACGGCAG
ATCCTGCAGCAGATGGAGGCGCTCGAGGAACGCCTGGCCCTGCGCCGGCAGAGCCCCGCCGGGCGCCTGCGG
ATCAACGCCGCCTCGCCCTTCATGCTGCACGCGGTGGTGCCGCACATCGGCGAGTTCCGCCGGCTGTACCCG
AACATCCAGCTCGAACTCAACACCAACGACCTGATCATCGACCTGTTGGAGCAACGCACCGACGTGGCGATC
CGCATCGGCGCGCTCAGCGACTCCACCCTGCACGCGCGGCCGCTGGGCGCCAGCCGCCTGCACATCCTCGCC
AGCCCGGAGTACCTGGCCCGCCACGGCATGCCGACGAGCATCGAGGGGCTGCGAGGGCACACCCTGCTCGGC
TTCACCCAGCCCGAGCACCTCAACCGCTGGCCGGTGGTGCACGCCGACGGCGATCGCCTGGAGATCCAGCCG
GATATCTCTGCCTCCAGCGGCGAGACCCTCCGCCAGCTGGCCCTGAGCCACCAGGGGATCGCCTGCCTGGCC
AGCTTCATGACCGACCGCGATATCCAGGACGGGCGCCTGGTGCCGCTGTTCGCCGAACAGATGAGCGAATAC
CGGCAACCGATCCACGCCGTCTACTACCGCAACTCGCAACTGGCGCTGCGCATCCAGTGCTTCCTCGACTTC
ATCCAGCAGCGCCTGGGCGCCTGA
Translation:
MKANSDELQSFVSVVDSGSISAAAEQMGLTASAVSRTLSRLEHKLGTTLLNRTTRRMELTEEGRYFLDQARQ
ILQQMEALEERLALRRQSPAGRLRINAASPFMLHAVVPHIGEFRRLYPNIQLELNTNDLIIDLLEQRTDVAI
RIGALSDSTLHARPLGASRLHILASPEYLARHGMPTSIEGLRGHTLLGFTQPEHLNRWPVVHADGDRLEIQP
DISASSGETLRQLALSHQGIACLASFMTDRDIQDGRLVPLFAEQMSEYRQPIHAVYYRNSQLALRIQCFLDF
IQQRLGA*
AnnotationID:2719GeneID:2711
AnnotatorUID: diggins
Modification Date/Time: 2005-03-02 06:06:39
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA1859
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam00126,pfam03466
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70233.1|AE016663_1 (AE016791) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 298

 Score =  409 bits (1051), Expect = e-113
 Identities = 207/293 (70%), Positives = 243/293 (82%)

>gb|AAM87058.1|AE013954_2 (AE013954) putative transcriptional regulator LYSR-type [Yersinia
           pestis KIM]
          Length = 303

 Score =  356 bits (913), Expect = 1e-97
 Identities = 186/293 (63%), Positives = 222/293 (75%)

>emb|CAE38268.1| (BX640432) probable LysR-family transcriptional regulator
           [Bordetella parapertussis]
          Length = 304

 Score =  350 bits (898), Expect = 6e-96
 Identities = 180/295 (61%), Positives = 219/295 (74%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.3% aligned
Score =  150 bits (378), Expect = 3e-37
Identities = 103/297 (34%), Positives = 154/297 (51%), Gaps = 10/297 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
CD-Length = 209 residues, 100.0% aligned
Score =  113 bits (285), Expect = 2e-26
Identities = 66/210 (31%), Positives = 100/210 (47%), Gaps = 4/210 (1%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues,  95.0% aligned
Score = 65.9 bits (161), Expect = 5e-12
Identities = 28/57 (49%), Positives = 39/57 (68%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5425




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22570




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37051




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2711_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2711
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4437
                           PA1859_tr
                           translation of PA1859
                           295
                           98.98
                           99.32
                           0
                           1468.0
     

     
     
128966
                           gb|AAG05248.1|AE004612_2
                           (AE004612) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           295
                           98.98
                           99.32
                           0
                           1468.0
     

     
     
128967
                           gb|AAN70233.1|AE016663_1
                           (AE016791) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           298
                           69.46
                           81.54
                           3
                           1050.0
     

     
     
128969
                           emb|CAC89523.1|
                           (AJ414144) LysR-family regulatory protein [Yersinia pestis CO92]
                           303
                           61.38
                           73.26
                           8
                           910.0
     

     
     
128968
                           gb|AAM87058.1|AE013954_2
                           (AE013954) putative transcriptional regulator LYSR-type [Yersinia pestis KIM]
                           303
                           61.38
                           73.26
                           8
                           910.0
     

     






      

          
GC ORFID: 45713How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1859Glimmer Score: 

          
Start: 1340433Stop: 1339546

          
Length: 888


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1859 translation of PA1859Homolog Bit Score 570.0

          
Other Homologs:  t_PA3124 (ORF: BLASTX 226.0), t_PA1859 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAAGCCAACTCCGATGAACTGCAAAGCTTCGTCAGTGTAGTCGACAGCGGTTCCATCAGCGCCGCCGCG 
GAACAGATGGGACTGACCGCCTCGGCCGTCAGCCGGACCCTCTCGCGCCTCGAGCACAAGCTCGGCACCACC 
CTGCTCAACCGCACCACCCGGCGCATGGAGCTGACCGAGGAAGGCCGCTACTTCCTCGACCAGGCACGGCAG 
ATCCTGCAGCAGATGGAGGCGCTCGAGGAACGCCTGGCCCTGCGCCGGCAGAGCCCCGCCGGGCGCCTGCGG 
ATCAACGCCGCCTCGCCCTTCATGCTGCACGCGGTGGTGCCGCACATCGGCGAGTTCCGCCGGCTGTACCCG 
AACATCCAGCTCGAACTCAACACCAACGACCTGATCATCGACCTGTTGGAGCAACGCACCGACGTGGCGATC 
CGCATCGGCGCGCTCAGCGACTCCACCCTGCACGCGCGGCCGCTGGGCGCCAGCCGCCTGCACATCCTCGCC 
AGCCCGGAGTACCTGGCCCGCCACGGCATGCCGACGAGCATCGAGGGGCTGCGAGGGCACACCCTGCTCGGC 
TTCACCCAGCCCGAGCACCTCAACCGCTGGCCGGTGGTGCACGCCGACGGCGATCGCCTGGAGATCCAGCCG 
GATATCTCTGCCTCCAGCGGCGAGACCCTCCGCCAGCTGGCCCTGAGCCACCAGGGGATCGCCTGCCTGGCC 
AGCTTCATGACCGACCGCGATATCCAGGACGGGCGCCTGGTGCCGCTGTTCGCCGAACAGATGAGCGAATAC 
CGGCAACCGATCCACGCCGTCTACTACCGCAACTCGCAACTGGCGCTGCGCATCCAGTGCTTCCTCGACTTC 
ATCCAGCAGCGCCTGGGCGCCTGA