ViewGene
Locus Name:
GeneID:
Location:

GeneID:2313
TrivialName: PA14_13510
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_13510
PAO1 Ortholog Locus:PA3895
Sequence Length:954
Protein Length:317
Start: 1162426
Stop: 1161473
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07282.1|AE004807_1 (AE004807) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 317/317 (100%), Positives = 317/317 (100%)
Sequence:
ATGGACACCCTGCAAAACATGCGAGCCTTCGTCTGCGTGGCGGAAACCGGAAGCTTCACCGCGGCGTCCCAG
CAGCTCAACACCACCACCGCCTATGTTTCGCGGGCGGTGGCCAACCTCGAGACGCACCTGCGCACCCGCcTG
CTCAACcGTACCACTCGTCGCATCGCCCTCACCGAGGCCGGCCAGCGCTACCTGCTGCGCTGCGAGCAGATC
CTCGCCTACGTCGAGGAAGCCGAGGCCGAAGCCAGCGACGCCCATGCCCGCCCCGCCGGCAAGCTGAAGCTG
CATTCGATGACCGGCATCGGCCAGCACTACGTGATCCGCGCCATCGCCGGCTACCGCCAGCAGTACCGCGAC
GTGACCTTCGACCTGACCATGGCCAACCGCGTGCCGGACCTGCTCGACGAGGGCTTCGACGTGGCCATCGTG
GTGGCCTCCGAGCTGCCCGATTCCGGCTTCATTTCCCAGCGCATCGGCGAGACCTACAGCATTCTTTGCGCC
TCGCCGGAGTACCTGCGCCTGAACGGCACGCCGAGCGAGCCTTCGGAGCTGGCCAGCCACGACTGCCTGCGT
CTGGTCAGCCCGGTGGTGCCGCTGGATCGCTGGCTGTTCGACGGTCCCAACGGCCAGGAAATGGTCTCCATC
GGCGCCTCGCCGTTCCAGGTCAATGTCGGCGACGCCATGACCGAGGCAATCCGCTCCGGGCTGGGCATCGGC
ATCCTGCCGGTGTATTCGGCCATCGAGGACCTGGGCAAGGGCACCCTGGTGCGGGTACTGCCGCAACACCGC
CTGCAACAGCTCAACGTCTATGCGCTGTACCCTTCGCGGCAGTATCTCGACGCGAAGATCAAGACCTGGGTG
GAATACCTCAAGGAAAGCCTGCCCGGCCTGCTCCAGCGCGACGAAGCGGCGCTGGTGGAGCTGGGCCTGGAA
CTCGGAAGACCCTCCTGA
Translation:
MDTLQNMRAFVCVAETGSFTAASQQLNTTTAYVSRAVANLETHLRTRLLNRTTRRIALTEAGQRYLLRCEQI
LAYVEEAEAEASDAHARPAGKLKLHSMTGIGQHYVIRAIAGYRQQYRDVTFDLTMANRVPDLLDEGFDVAIV
VASELPDSGFISQRIGETYSILCASPEYLRLNGTPSEPSELASHDCLRLVSPVVPLDRWLFDGPNGQEMVSI
GASPFQVNVGDAMTEAIRSGLGIGILPVYSAIEDLGKGTLVRVLPQHRLQQLNVYALYPSRQYLDAKIKTWV
EYLKESLPGLLQRDEAALVELGLELGRPS*
AnnotationID:2321GeneID:2313
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 20:08:44
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA3895
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|AAN66886.1|AE016317_3 (AE016778) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 315

 Score =  468 bits (1203), Expect = e-131
 Identities = 226/306 (73%), Positives = 270/306 (88%)

>gb|AAO54743.1| (AE016860) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 315

 Score =  447 bits (1149), Expect = e-125
 Identities = 225/306 (73%), Positives = 261/306 (85%)







 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues, 100.0% aligned
Score =  153 bits (387), Expect = 5e-38
Identities = 87/304 (28%), Positives = 146/304 (48%), Gaps = 11/304 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain
CD-Length = 209 residues, 100.0% aligned
Score =  101 bits (254), Expect = 2e-22

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, 
lysR family
CD-Length = 60 residues, 100.0% aligned
Score = 65.9 bits (161), Expect = 1e-11







   
Genomic Context:






   
Comment:


















    ReferenceID:4629




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21775




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31671




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2313_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2313
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3940
                           PA3895_tr
                           translation of PA3895
                           317
                           99.99
                           99.99
                           0
                           1609.0
     

     
     
120145
                           gb|AAG07282.1|AE004807_1
                           (AE004807) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           317
                           99.99
                           99.99
                           0
                           1609.0
     

     
     
120146
                           gb|AAN66886.1|AE016317_3
                           (AE016778) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           317
                           71.29
                           85.80
                           2
                           1195.0
     

     
     
120147
                           gb|AAO54743.1|
                           (AE016860) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           318
                           71.06
                           83.64
                           4
                           1143.0
     

     
     
3941
                           PA0876_tr
                           translation of PA0876
                           317
                           66.87
                           82.96
                           3
                           1107.0
     

     






      

          
GC ORFID: 45315How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3895Glimmer Score: 

          
Start: 3791512Stop: 3792465

          
Length: 954


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3895 translation of PA3895Homolog Bit Score 624.0

          
Other Homologs:  t_PA0876 (ORF: BLASTX 433.0), t_PA0159 (ORF: BLASTX 306.0), t_PA2838 (ORF: BLASTX 255.0), t_PA3895 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGACACCCTGCAAAACATGCGAGCCTTCGTCTGCGTGGCGGAAACCGGAAGCTTCACCGCGGCGTCCCAG 
CAGCTCAACACCACCACCGCCTATGTTTCGCGGGCGGTGGCCAACCTCGAGACGCACCTGCGCACCCGCcTG 
CTCAACcGTACCACTCGTCGCATCGCCCTCACCGAGGCCGGCCAGCGCTACCTGCTGCGCTGCGAGCAGATC 
CTCGCCTACGTCGAGGAAGCCGAGGCCGAAGCCAGCGACGCCCATGCCCGCCCCGCCGGCAAGCTGAAGCTG 
CATTCGATGACCGGCATCGGCCAGCACTACGTGATCCGCGCCATCGCCGGCTACCGCCAGCAGTACCGCGAC 
GTGACCTTCGACCTGACCATGGCCAACCGCGTGCCGGACCTGCTCGACGAGGGCTTCGACGTGGCCATCGTG 
GTGGCCTCCGAGCTGCCCGATTCCGGCTTCATTTCCCAGCGCATCGGCGAGACCTACAGCATTCTTTGCGCC 
TCGCCGGAGTACCTGCGCCTGAACGGCACGCCGAGCGAGCCTTCGGAGCTGGCCAGCCACGACTGCCTGCGT 
CTGGTCAGCCCGGTGGTGCCGCTGGATCGCTGGCTGTTCGACGGTCCCAACGGCCAGGAAATGGTCTCCATC 
GGCGCCTCGCCGTTCCAGGTCAATGTCGGCGACGCCATGACCGAGGCAATCCGCTCCGGGCTGGGCATCGGC 
ATCCTGCCGGTGTATTCGGCCATCGAGGACCTGGGCAAGGGCACCCTGGTGCGGGTACTGCCGCAACACCGC 
CTGCAACAGCTCAACGTCTATGCGCTGTACCCTTCGCGGCAGTATCTCGACGCGAAGATCAAGACCTGGGTG 
GAATACCTCAAGGAAAGCCTGCCCGGCCTGCTCCAGCGCGACGAAGCGGCGCTGGTGGAGCTGGGCCTGGAA 
CTCGGAAGACCCTCCTGA