ViewGene
Locus Name:
GeneID:
Location:

GeneID:2685
TrivialName: PA14_71090
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71090
PAO1 Ortholog Locus:PA5382
Sequence Length:894
Protein Length:297
Start: 6334151
Stop: 6333258
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08767.1|AE004951_1 (AE004951) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 295/297 (99%), Positives = 296/297 (99%)
Sequence:
ATGGCCCTCAGTTTCCGTCAGCTCCAGATCTTCTGTGCGGTGGCTCGCTGCGGCAGTACCACGGCGGCGGCG
GAATCCATCTCGCTGTCGCAGTCGGCCACCAGCGCTGCGCTCAACGAGCTGGAGTCGCAGCTTTCCACGCGC
CTGTTCGACCGGGTCGGCAAGCGCCTGCAACTGAACGAGGTCGGCCGCCGCTTCCTGCCCCAGGCATTGCGC
CTGCTCGACGGGGTGGCGCAACTGGAGCAGCAGTTCGCGGTTTCCGCCGCGCCCCAGGCGAGCCTGACGGTG
GCGGCCAGCAGCACCATCGGCAACTACGTGCTGCCACGCCTGCTGGCCTCCTTCGAGCGGGAGCAGCCGGGG
GTGAGGGTCAACGCCAGCATCGGCAACACCGGTTCGGCGGTGCAGGACGTGGTGACCTTCGCGGCGGACATC
GGCCTCATCGAAGGCCCCTGCCACGAGCCGGGCCTGCGGGTGGAGCCCTGGCTCGAGGACAGCCTGATCGTG
GTGGCGGCGCCCGGCCACCCGCTGGCCTTGCGCACCCAGGTCTCCCGCGAGGCCCTGCGCCGTGCGCGCTGG
CTGCTGCGCGAGCCCGGCTCGGGCACGCGCGAGGAGGTCAGCCACGCCCTGCTGGGCCACCTGCATTACCTG
GAAGACAGCCTGGACCTGGGCAGCTCCGAGGCGATCAAGCACAGCGTCGCCGCCGGGCTGGGCATCAGTTGC
CTGTCGCGCTGGGTGGTCGAGGAACAGTTGGCCTCCGGCGCGCTGGTCGAACTGCGCAGCAGCCTGCCGCCG
TTGCGCCGGCGTTTCTACATGCTGCGCCAGCGCGACAAGTTCCTCTCGCCGGGCTTCGAGCGCTTCTGGGAA
CACTGTCGGGCGGGACTCGGCGCCGGCTAG
Translation:
MALSFRQLQIFCAVARCGSTTAAAESISLSQSATSAALNELESQLSTRLFDRVGKRLQLNEVGRRFLPQALR
LLDGVAQLEQQFAVSAAPQASLTVAASSTIGNYVLPRLLASFEREQPGVRVNASIGNTGSAVQDVVTFAADI
GLIEGPCHEPGLRVEPWLEDSLIVVAAPGHPLALRTQVSREALRRARWLLREPGSGTREEVSHALLGHLHYL
EDSLDLGSSEAIKHSVAAGLGISCLSRWVVEEQLASGALVELRSSLPPLRRRFYMLRQRDKFLSPGFERFWE
HCRAGLGAG*
AnnotationID:2693GeneID:2685
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 08:08:36
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:yeiE
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|AAO58058.1| (AE016872) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 298

 Score =  334 bits (857), Expect = 3e-91
 Identities = 173/291 (59%), Positives = 209/291 (71%), Gaps = 1/291 (0%)

>gb|AAM42661.1| (AE012457) transcriptional regulator [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
          Length = 304

 Score =  325 bits (832), Expect = 3e-88
 Identities = 170/292 (58%), Positives = 198/292 (67%), Gaps = 1/292 (0%)

>gb|AAO57015.1| (AE016868) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 317

 Score =  314 bits (805), Expect = 3e-85
 Identities = 163/292 (55%), Positives = 203/292 (69%), Gaps = 1/292 (0%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.7% aligned
Score =  143 bits (362), Expect = 1e-35
Identities = 97/297 (32%), Positives = 143/297 (48%), Gaps = 7/297 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
D-Length = 209 residues, 100.0% aligned
Score =  141 bits (356), Expect = 1e-34
Identities = 75/209 (35%), Positives = 104/209 (49%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5373




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22518




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34719




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2685_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2685
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4406
                           PA5382_tr
                           translation of PA5382
                           297
                           99.32
                           99.66
                           0
                           1482.0
     

     
     
128248
                           gb|AAG08767.1|AE004951_1
                           (AE004951) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           297
                           99.32
                           99.66
                           0
                           1482.0
     

     
     
128249
                           gb|AAO58058.1|
                           (AE016872) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           298
                           58.05
                           70.46
                           1
                           852.0
     

     
     
128250
                           gb|AAM42661.1|
                           (AE012457) transcriptional regulator [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           304
                           55.92
                           65.13
                           7
                           825.0
     

     
     
128251
                           gb|AAO57015.1|
                           (AE016868) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           317
                           51.41
                           64.03
                           20
                           803.0
     

     






      

          
GC ORFID: 45687How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5382Glimmer Score: 

          
Start: 5597840Stop: 5596947

          
Length: 894


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA5382 translation of PA5382Homolog Bit Score 575.0

          
Other Homologs:  t_PA3398 (ORF: BLASTX 234.0), psyr_15may02_Scaffold3_revised_gene4774 (ORF: BLASTX 229.0), t_PA5382 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCCTCAGTTTCCGTCAGCTCCAGATCTTCTGTGCGGTGGCTCGCTGCGGCAGTACCACGGCGGCGGCG 
GAATCCATCTCGCTGTCGCAGTCGGCCACCAGCGCTGCGCTCAACGAGCTGGAGTCGCAGCTTTCCACGCGC 
CTGTTCGACCGGGTCGGCAAGCGCCTGCAACTGAACGAGGTCGGCCGCCGCTTCCTGCCCCAGGCATTGCGC 
CTGCTCGACGGGGTGGCGCAACTGGAGCAGCAGTTCGCGGTTTCCGCCGCGCCCCAGGCGAGCCTGACGGTG 
GCGGCCAGCAGCACCATCGGCAACTACGTGCTGCCACGCCTGCTGGCCTCCTTCGAGCGGGAGCAGCCGGGG 
GTGAGGGTCAACGCCAGCATCGGCAACACCGGTTCGGCGGTGCAGGACGTGGTGACCTTCGCGGCGGACATC 
GGCCTCATCGAAGGCCCCTGCCACGAGCCGGGCCTGCGGGTGGAGCCCTGGCTCGAGGACAGCCTGATCGTG 
GTGGCGGCGCCCGGCCACCCGCTGGCCTTGCGCACCCAGGTCTCCCGCGAGGCCCTGCGCCGTGCGCGCTGG 
CTGCTGCGCGAGCCCGGCTCGGGCACGCGCGAGGAGGTCAGCCACGCCCTGCTGGGCCACCTGCATTACCTG 
GAAGACAGCCTGGACCTGGGCAGCTCCGAGGCGATCAAGCACAGCGTCGCCGCCGGGCTGGGCATCAGTTGC 
CTGTCGCGCTGGGTGGTCGAGGAACAGTTGGCCTCCGGCGCGCTGGTCGAACTGCGCAGCAGCCTGCCGCCG 
TTGCGCCGGCGTTTCTACATGCTGCGCCAGCGCGACAAGTTCCTCTCGCCGGGCTTCGAGCGCTTCTGGGAA 
CACTGTCGGGCGGGACTCGGCGCCGGCTAG