ViewGene
Locus Name:
GeneID:
Location:

GeneID:2510
TrivialName: PA14_00680
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_00680
PAO1 Ortholog Locus:PA0056
Sequence Length:921
Protein Length:306
Start: 69266
Stop: 68346
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03446.1|AE004445_7 (AE004445) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 305/306 (99%), Positives = 305/306 (99%)
Sequence:
ATGGACCGCCTGACCGCCACCCGCGTCTTCGTCGAGGTCATCGACAGCGGCAGCCAGACCGCCGCCGCCGAG
CGTCTGGACATGTCCCGGGCGATGGTCTCGCGCTACCTCGCCGAGTTGGAGGAGTGGGTCGGCGCACGCCTG
CTGCACCGCAGCACCCGCCGCCTGAGCCTGACCGACGCCGGCGCGGAGCTGTTGCCGCAGTGCCGCGAGATG
CTCGCCGTGGCCGACGCCATGCAGGCCACCGGCCAGACCCGCCGCGACAGCCCGCGCGGCACCCTGCGCATC
ACCAGCAGCCTGTCCTTCGCCCAGGCCTGGCTGACCCGTGCCGCCGCCGCCTTCGTCGAGCGCTACCCGGGC
ACCGCCATCGACCTGCAGGTCAACAGCCAGGTGGTCAACCTGGTGGAGGAGCGCATCGACCTGGCCCTGCGC
ATCGCCAACCAGCTCGACCCCAACCTGATCGCCCGCCGCCTCGGCGAATGCCGCTCGGTGATCTGCGCCGCG
CCGGACTACCTGCGCGGCCACGGCACCCCGCGGCGCCCGGAGGACCTGGCGCTGCACAACTGCCTGACCTAC
TCCTACTTCGGCCGCAGTCTCTGGCAGTTCGAGCGCGACGGCGAGCCGACCAGCGTGCCGGTGGGTGGCAGT
CTCAGCGCCAACGAATCCACCGTGCTGCTGGAGGCCGCCGCCGCCGGTGCCGGGATCAGCCAGCAGCCGCTG
TACTCGGCAGCCCCGCTGATCCGTAGCGGACGCCTGGTGGCGCTGCTGCCGGAGTGGTCGCCGCAGGTGCTC
GGCATCCACGCGGTGTACGCCTCGCGCCGGCAGATGCCGCCGGCGCTGCGGGCGCTGCTGGACTTCCTGGTC
GAACGGATGGCGGCCGATCCGCACTGGGACGAGGCGGGCCCCCTGGCGCTGGCGTGA
Translation:
MDRLTATRVFVEVIDSGSQTAAAERLDMSRAMVSRYLAELEEWVGARLLHRSTRRLSLTDAGAELLPQCREM
LAVADAMQATGQTRRDSPRGTLRITSSLSFAQAWLTRAAAAFVERYPGTAIDLQVNSQVVNLVEERIDLALR
IANQLDPNLIARRLGECRSVICAAPDYLRGHGTPRRPEDLALHNCLTYSYFGRSLWQFERDGEPTSVPVGGS
LSANESTVLLEAAAAGAGISQQPLYSAAPLIRSGRLVALLPEWSPQVLGIHAVYASRRQMPPALRALLDFLV
ERMAADPHWDEAGPLALA*
AnnotationID:2518GeneID:2510
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 16:04:42
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA0056
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:
>emb|CAE33743.1| (BX640447) probable LysR-family transcriptional regulator
           [Bordetella bronchiseptica]
          Length = 303

 Score =  360 bits (923), Expect = 8e-99
 Identities = 186/300 (62%), Positives = 219/300 (73%), Gaps = 1/300 (0%)

>gb|AAO55956.1| (AE016864) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 294

 Score =  359 bits (922), Expect = 1e-98
 Identities = 175/292 (59%), Positives = 221/292 (75%)

>emb|CAE41538.1| (BX640414) probable LysR-family transcriptional regulator
           [Bordetella pertussis]
          Length = 303

 Score =  359 bits (922), Expect = 1e-98
 Identities = 185/300 (61%), Positives = 219/300 (73%), Gaps = 1/300 (0%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  140 bits (352), Expect = 3e-34
Identities = 95/301 (31%), Positives = 139/301 (46%), Gaps = 9/301 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
CD-Length = 209 residues, 100.0% aligned
Score =  122 bits (307), Expect = 6e-29
Identities = 70/209 (33%), Positives = 96/209 (45%), Gaps = 3/209 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5023




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22169




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33408




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2510_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2510
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4192
                           PA0056_tr
                           translation of PA0056
                           306
                           99.67
                           99.67
                           0
                           1539.0
     

     
     
123873
                           gb|AAG03446.1|AE004445_7
                           (AE004445) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           306
                           99.67
                           99.67
                           0
                           1539.0
     

     
     
123874
                           emb|CAE33743.1|
                           (BX640447) probable LysR-family transcriptional regulator [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           308
                           60.71
                           71.42
                           7
                           918.0
     

     
     
123875
                           emb|CAE37158.1|
                           (BX640428) probable LysR-family transcriptional regulator [Bordetella parapertussis]
                           308
                           60.71
                           71.42
                           7
                           918.0
     

     
     
123877
                           emb|CAE41538.1|
                           (BX640414) probable LysR-family transcriptional regulator [Bordetella pertussis] [Bordetella pertussis Tohama I]
                           308
                           60.38
                           71.42
                           7
                           917.0
     

     






      

          
GC ORFID: 45512How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0056Glimmer Score: 

          
Start: 5870603Stop: 5869683

          
Length: 921


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0056 translation of PA0056Homolog Bit Score 597.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1197 (ORF: BLASTX 367.0), psyr_15may02_Scaffold7_revised_gene7285 (ORF: BLASTX 212.0), t_PA0056 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGACCGCCTGACCGCCACCCGCGTCTTCGTCGAGGTCATCGACAGCGGCAGCCAGACCGCCGCCGCCGAG 
CGTCTGGACATGTCCCGGGCGATGGTCTCGCGCTACCTCGCCGAGTTGGAGGAGTGGGTCGGCGCACGCCTG 
CTGCACCGCAGCACCCGCCGCCTGAGCCTGACCGACGCCGGCGCGGAGCTGTTGCCGCAGTGCCGCGAGATG 
CTCGCCGTGGCCGACGCCATGCAGGCCACCGGCCAGACCCGCCGCGACAGCCCGCGCGGCACCCTGCGCATC 
ACCAGCAGCCTGTCCTTCGCCCAGGCCTGGCTGACCCGTGCCGCCGCCGCCTTCGTCGAGCGCTACCCGGGC 
ACCGCCATCGACCTGCAGGTCAACAGCCAGGTGGTCAACCTGGTGGAGGAGCGCATCGACCTGGCCCTGCGC 
ATCGCCAACCAGCTCGACCCCAACCTGATCGCCCGCCGCCTCGGCGAATGCCGCTCGGTGATCTGCGCCGCG 
CCGGACTACCTGCGCGGCCACGGCACCCCGCGGCGCCCGGAGGACCTGGCGCTGCACAACTGCCTGACCTAC 
TCCTACTTCGGCCGCAGTCTCTGGCAGTTCGAGCGCGACGGCGAGCCGACCAGCGTGCCGGTGGGTGGCAGT 
CTCAGCGCCAACGAATCCACCGTGCTGCTGGAGGCCGCCGCCGCCGGTGCCGGGATCAGCCAGCAGCCGCTG 
TACTCGGCAGCCCCGCTGATCCGTAGCGGACGCCTGGTGGCGCTGCTGCCGGAGTGGTCGCCGCAGGTGCTC 
GGCATCCACGCGGTGTACGCCTCGCGCCGGCAGATGCCGCCGGCGCTGCGGGCGCTGCTGGACTTCCTGGTC 
GAACGGATGGCGGCCGATCCGCACTGGGACGAGGCGGGCCCCCTGGCGCTGGCGTGA