ViewGene
Locus Name:
GeneID:
Location:

GeneID:2213
TrivialName: PA14_03780
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_03780
PAO1 Ortholog Locus:PA0289
Sequence Length:963
Protein Length:320
Start: 338777
Stop: 339739
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03678.1|AE004466_12 (AE004466) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 316/320 (98%), Positives = 317/320 (99%)
Sequence:
ATGAGGGCGGGAATGCTGGGCAACCTCAACGACATCGACCTGCGCATGCTGCGCACCTTCTGCGCCATCGTC
GAGGCCGGCGGCTTCACTGCCGCCCAGGCGCGCCTGAACACCAGCCTGTCGCGCCTGAGCGTGCTGGTGCGC
GACTTGGAGGTGCGCCTGGGCTATTCCCTGTGCCGGCGCGGCAACGGCGGTTTCCAGTTGACCGAGGAGGGA
CAGGAACTCTACGACGCCGCGCTCGGCCTGTTCAGCGACATCGCCCGTTTCCGCGAGCAGGTCCGTGGCCTC
GGCGGGCGCGATCGCGAGGCGTTGCACCTGGGCTGCGTCGATGGCGTCATCGGCCAGCATTGCCTACCGTTG
CCGCTGGCCATCCGGCTGTTTCGCCAGCGCGCCCCGGAGGTGCTGCTCAAGCTGCACACGCGGCGTCCCGAC
GAACTCGAGCACGCGGTGCTGGAAGAGCGCCTGCAACTGGCGGTGGGGGCCTTCCACCACCGGTTGTCCGGG
CTCTACTACCAACCCCTGTTCCGCGAGGAGCAGAACCTCTATTGCGGCAGCGCGCACCCCTTCTTCGCCCGG
GCGGACGACGAACCGGCGCTGGACGAGATCTGCGCCGCCGACTATGTCGGCCGCGGCTACATGGCGGAAAAC
CATCGCCCGCACGACCTGCGCTTCAACCAGGGAACCGATGCCTACACCATGGAGGCCATCGCTACCCTGGTC
TTCAGCGGCACCTACATCGGCTACCTGCCGACGCACTACGCCGCCACCTGGGTCGCCGAAGGACGCATGCGG
GCGATCCGGCCGCGGCAACTGGCCTACGACTCGGAATTCCATTGCATTACCCGCCAGGGACACGAAGAACGA
CCGACCCTGACCCTGTTCCTGCGCTCGCTGTTCGAGGCGCAGAAACAACTGGGCGTGCAGGTGCCGGCGAAT
ACGAACGGTATCGCTCGGCAACTGTGA
Translation:
MRAGMLGNLNDIDLRMLRTFCAIVEAGGFTAAQARLNTSLSRLSVLVRDLEVRLGYSLCRRGNGGFQLTEEG
QELYDAALGLFSDIARFREQVRGLGGRDREALHLGCVDGVIGQHCLPLPLAIRLFRQRAPEVLLKLHTRRPD
ELEHAVLEERLQLAVGAFHHRLSGLYYQPLFREEQNLYCGSAHPFFARADDEPALDEICAADYVGRGYMAEN
HRPHDLRFNQGTDAYTMEAIATLVFSGTYIGYLPTHYAATWVAEGRMRAIRPRQLAYDSEFHCITRQGHEER
PTLTLFLRSLFEAQKQLGVQVPANTNGIARQL*
AnnotationID:2221GeneID:2213
AnnotatorUID: diggins
Modification Date/Time: 2005-03-24 06:06:20
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA0289
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:






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  99.0% aligned
Score =  114 bits (285), Expect = 2e-26
Identities = 80/298 (26%), Positives = 120/298 (40%), Gaps = 8/298 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  99.0% aligned
Score = 88.5 bits (219), Expect = 1e-18
Identities = 52/210 (24%), Positives = 75/210 (35%), Gaps = 8/210 (3%)

pfam00126, HTH_1, Bacterial regulatory helix-turn-helix protein, lysR family.
CD-Length = 60 residues, 100.0% aligned
Score = 54.3 bits (131), Expect = 2e-08







   
Genomic Context:






   
Comment:


















    ReferenceID:4429




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21575




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33624




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2213_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2213
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3760
                           PA0289_tr
                           translation of PA0289
                           320
                           98.75
                           99.06
                           0
                           1652.0
     

     
     
115827
                           gb|AAG03678.1|AE004466_12
                           (AE004466) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           320
                           98.75
                           99.06
                           0
                           1652.0
     

     
     
3761
                           PA1145_tr
                           translation of PA1145
                           329
                           39.81
                           53.79
                           38
                           584.0
     

     
     
115828
                           gb|AAG04534.1|AE004544_6
                           (AE004544) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           329
                           39.81
                           53.79
                           38
                           584.0
     

     
     
3762
                           PA1422_tr
                           translation of PA1422
                           324
                           38.88
                           49.38
                           31
                           521.0
     

     






      

          
GC ORFID: 45215How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0289Glimmer Score: 

          
Start: 6140118Stop: 6141080

          
Length: 963


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0289 translation of PA0289Homolog Bit Score 640.0

          
Other Homologs:  t_PA1145 (ORF: BLASTX 226.0), t_PA1422 (ORF: BLASTX 203.0), t_PA0289 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGGGCGGGAATGCTGGGCAACCTCAACGACATCGACCTGCGCATGCTGCGCACCTTCTGCGCCATCGTC 
GAGGCCGGCGGCTTCACTGCCGCCCAGGCGCGCCTGAACACCAGCCTGTCGCGCCTGAGCGTGCTGGTGCGC 
GACTTGGAGGTGCGCCTGGGCTATTCCCTGTGCCGGCGCGGCAACGGCGGTTTCCAGTTGACCGAGGAGGGA 
CAGGAACTCTACGACGCCGCGCTCGGCCTGTTCAGCGACATCGCCCGTTTCCGCGAGCAGGTCCGTGGCCTC 
GGCGGGCGCGATCGCGAGGCGTTGCACCTGGGCTGCGTCGATGGCGTCATCGGCCAGCATTGCCTACCGTTG 
CCGCTGGCCATCCGGCTGTTTCGCCAGCGCGCCCCGGAGGTGCTGCTCAAGCTGCACACGCGGCGTCCCGAC 
GAACTCGAGCACGCGGTGCTGGAAGAGCGCCTGCAACTGGCGGTGGGGGCCTTCCACCACCGGTTGTCCGGG 
CTCTACTACCAACCCCTGTTCCGCGAGGAGCAGAACCTCTATTGCGGCAGCGCGCACCCCTTCTTCGCCCGG 
GCGGACGACGAACCGGCGCTGGACGAGATCTGCGCCGCCGACTATGTCGGCCGCGGCTACATGGCGGAAAAC 
CATCGCCCGCACGACCTGCGCTTCAACCAGGGAACCGATGCCTACACCATGGAGGCCATCGCTACCCTGGTC 
TTCAGCGGCACCTACATCGGCTACCTGCCGACGCACTACGCCGCCACCTGGGTCGCCGAAGGACGCATGCGG 
GCGATCCGGCCGCGGCAACTGGCCTACGACTCGGAATTCCATTGCATTACCCGCCAGGGACACGAAGAACGA 
CCGACCCTGACCCTGTTCCTGCGCTCGCTGTTCGAGGCGCAGAAACAACTGGGCGTGCAGGTGCCGGCGAAT 
ACGAACGGTATCGCTCGGCAACTGTGA