ViewGene
Locus Name:
GeneID:
Location:

GeneID:2370
TrivialName: PA14_69880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69880
PAO1 Ortholog Locus:PA5293
Sequence Length:918
Protein Length:305
Start: 6232539
Stop: 6231622
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08678.1|AE004942_1 (AE004942) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 303/305 (99%), Positives = 304/305 (99%)
Sequence:
ATGACCCGTCGCCTGCCCCCGCTGTATGCCCTGCGCGCCTTCGAGGCTGCCGCCCGGCACGCCTCTTTCACC
CGCGCCGGCGAGGAACTGGCGATAACCCAGAGCGCGGTGAGCCGGCACATCCGTACCCTGGAGGAGCACTTC
GATTGCCGTCTGTTCGAGCGCCATGGCCGCCAGTTGCAGCTGACCGAGCCGGCACGCCTGCTACTGCCCGGG
CTGCGCGACGGCTTCGATGCGCTGGAACGGGCCTGCACCGCCCTGCGCGTGGACGACGCCACCCTGCGCCTG
AAGGCGCCTTCCACCCTTACCCTGCGCTGGCTGCTACCGCGCCTGAGCCGCTTCCGCCACCTGAACCCGGAT
ATCGAGGTGCAGCTCACCAGTGCCTGGATGGATGTGGACTCGGTGGATTTCCAGCGCGAGCCTTTCGACTGC
GCGGTGTTGCTGGGCAGCGGCCAGTTCAGCCCGGAATGGGAAACGGCAGCGCTGTTCGCCGAATGGCTGGTG
CCGGTCTGCGATCCCGACGAGGCCGTGGAGCCCTGGACCCTCCAACGCCTGCGTGACAGCGAGCTGCTGCAC
CCCACGCCGGATCGTCGCGACTGGCGACGCTGGCTGCAGCGGACTGGGCTGGGGGACGAGGTGTCGCTCAAG
GGCGGCCAGGTGTTCGACACGCTGGAACTGGGTATCGTCGCCGCCGCACGAGGCTATGGCGTGTCCATCGGC
GACCTGGTGATGGTCGCCGAGGATGTCGCCCAGGGCCGCATCGGCCTGCCCTGGCCGGTGGCGGTGGCCAGC
GGCGAAAGCTATCACCTAGTCTGGCCTCGCGCCCGCAGGGGACAGGAACGCTTCCAGCGATTGCGCGACTTC
CTCCTCGCGGAGGTGGCGGCGATGCGTCTGCCCGTCGTCGAGCGGCTGGCGTGA
Translation:
MTRRLPPLYALRAFEAAARHASFTRAGEELAITQSAVSRHIRTLEEHFDCRLFERHGRQLQLTEPARLLLPG
LRDGFDALERACTALRVDDATLRLKAPSTLTLRWLLPRLSRFRHLNPDIEVQLTSAWMDVDSVDFQREPFDC
AVLLGSGQFSPEWETAALFAEWLVPVCDPDEAVEPWTLQRLRDSELLHPTPDRRDWRRWLQRTGLGDEVSLK
GGQVFDTLELGIVAAARGYGVSIGDLVMVAEDVAQGRIGLPWPVAVASGESYHLVWPRARRGQERFQRLRDF
LLAEVAAMRLPVVERLA*
AnnotationID:2378GeneID:2370
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 12:12:41
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA5293
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam03466,pfam00126
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53670.1| (AE016856) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 306

 Score =  446 bits (1148), Expect = e-125
 Identities = 220/305 (72%), Positives = 251/305 (82%), Gaps = 1/305 (0%)

>gb|AAN70826.1|AE016727_2 (AE016793) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 308

 Score =  431 bits (1109), Expect = e-120
 Identities = 219/305 (71%), Positives = 243/305 (79%), Gaps = 1/305 (0%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  121 bits (304), Expect = 1e-28
Identities = 84/299 (28%), Positives = 120/299 (40%), Gaps = 7/299 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  97.1% aligned
Score = 79.3 bits (195), Expect = 5e-16
Identities = 58/208 (27%), Positives = 85/208 (40%), Gaps = 11/208 (5%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues, 100.0% aligned
Score = 77.9 bits (192), Expect = 1e-15
Identities = 35/60 (58%), Positives = 38/60 (63%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4743




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21889




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34784




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2370_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2370
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4014
                           PA5293_tr
                           translation of PA5293
                           305
                           99.34
                           99.67
                           0
                           1580.0
     

     
     
121025
                           gb|AAG08678.1|AE004942_1
                           (AE004942) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           305
                           99.34
                           99.67
                           0
                           1580.0
     

     
     
121026
                           gb|AAO53670.1|
                           (AE016856) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           306
                           71.89
                           82.02
                           1
                           1149.0
     

     
     
121027
                           gb|AAN70826.1|AE016727_2
                           (AE016793) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           308
                           71.10
                           78.89
                           3
                           1110.0
     

     
     
121028
                           gb|AAO55401.1|
                           (AE016862) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           314
                           53.18
                           67.83
                           15
                           850.0
     

     






      

          
GC ORFID: 45372How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5293Glimmer Score: 

          
Start: 5496227Stop: 5495310

          
Length: 918


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5293 translation of PA5293Homolog Bit Score 613.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene4058 (ORF: BLASTX 440.0), t_PA5293 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCCGTCGCCTGCCCCCGCTGTATGCCCTGCGCGCCTTCGAGGCTGCCGCCCGGCACGCCTCTTTCACC 
CGCGCCGGCGAGGAACTGGCGATAACCCAGAGCGCGGTGAGCCGGCACATCCGTACCCTGGAGGAGCACTTC 
GATTGCCGTCTGTTCGAGCGCCATGGCCGCCAGTTGCAGCTGACCGAGCCGGCACGCCTGCTACTGCCCGGG 
CTGCGCGACGGCTTCGATGCGCTGGAACGGGCCTGCACCGCCCTGCGCGTGGACGACGCCACCCTGCGCCTG 
AAGGCGCCTTCCACCCTTACCCTGCGCTGGCTGCTACCGCGCCTGAGCCGCTTCCGCCACCTGAACCCGGAT 
ATCGAGGTGCAGCTCACCAGTGCCTGGATGGATGTGGACTCGGTGGATTTCCAGCGCGAGCCTTTCGACTGC 
GCGGTGTTGCTGGGCAGCGGCCAGTTCAGCCCGGAATGGGAAACGGCAGCGCTGTTCGCCGAATGGCTGGTG 
CCGGTCTGCGATCCCGACGAGGCCGTGGAGCCCTGGACCCTCCAACGCCTGCGTGACAGCGAGCTGCTGCAC 
CCCACGCCGGATCGTCGCGACTGGCGACGCTGGCTGCAGCGGACTGGGCTGGGGGACGAGGTGTCGCTCAAG 
GGCGGCCAGGTGTTCGACACGCTGGAACTGGGTATCGTCGCCGCCGCACGAGGCTATGGCGTGTCCATCGGC 
GACCTGGTGATGGTCGCCGAGGATGTCGCCCAGGGCCGCATCGGCCTGCCCTGGCCGGTGGCGGTGGCCAGC 
GGCGAAAGCTATCACCTAGTCTGGCCTCGCGCCCGCAGGGGACAGGAACGCTTCCAGCGATTGCGCGACTTC 
CTCCTCGCGGAGGTGGCGGCGATGCGTCTGCCCGTCGTCGAGCGGCTGGCGTGA