ViewGene
Locus Name:
GeneID:
Location:

GeneID:2662
TrivialName: PA14_31630
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_31630
PAO1 Ortholog Locus:PA2547
Sequence Length:906
Protein Length:301
Start: 2749379
Stop: 2748474
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05935.1|AE004682_7 (AE004682) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 294/301 (97%), Positives = 298/301 (99%)
Sequence:
GTGGATCACCTCACCGCCCTCAAGGTCTTCCGCGCCGTGGCCGCGAATGGCGGCTTCGCCGCCGCGGCCCGG
CAGATGAATCTCTCGCCGGCCGCCGTGAGCAAGAACGTCGCCGAGCTGGAAGCGCACCTCAAGGTGCGCCTG
ATCAATCGCACCACCCGCAGCATGAGCCTGACCGAGGCCGGCGAAGTCTACCGGCAGCGCCTGGAGCGCATC
CTCGACGACCTCGAGGCCGCCGACGCCGCGCTCACTTCGATGCAGCAGGGCCCCAGCGGCCTGCTGCGGGTC
AGCGCCCCGCTGACCCTCGCCCTCACCTGCCTGACCCCGGCCATTCCGGCTTTTCTCCAGCGTTATCCGGAC
CTGCGCCTGGAACTGCTCCTGCAGGACGGCCGCCAGGACCTGATCGCCGAAGGCATCGACCTGGCCCTGCGC
GGTAGCGACCGGGTTGCGGACTCCGGCCTGGTCGCTCGCCCGCTGCTGATCCTGGAGCACGTGCTCTGCGCG
GCGCCGGCCTACCTCGGTCAGCATGGCCAGCCGCTGCGGCCGGAGGCCCTGCGCGAACACGAGTGCATCCGC
TTCAGCCTCTCTGGCCATGCCGACCGCTGGACCTTCCGCAAGGGCCGCGAGTGCGTAGCGGTGCCTATCGCC
GGGCGTTACCGGGTGTCCTCCAGCCTGGCGGTGCGCGATGCCCTGCTCGCCGGCTTCGGCTTGAGTCTGATC
CCACGGCTGTACGTACAGGCGGAACTGGCCGAAGGCCGCCTGGTTGAATTGCTGGCCGGCTGGAAGGCCGAC
GAGACGGCGATCCACGCGGTCTATCCATCGCGCCAACTGGCCGGCAAGACCCGGGTGTTTCTCGACTTCCTG
ACCGAGACAATGGCGCAGGGCCATGATTCCCCAACGCTGTAA
Translation:
MDHLTALKVFRAVAANGGFAAAARQMNLSPAAVSKNVAELEAHLKVRLINRTTRSMSLTEAGEVYRQRLERI
LDDLEAADAALTSMQQGPSGLLRVSAPLTLALTCLTPAIPAFLQRYPDLRLELLLQDGRQDLIAEGIDLALR
GSDRVADSGLVARPLLILEHVLCAAPAYLGQHGQPLRPEALREHECIRFSLSGHADRWTFRKGRECVAVPIA
GRYRVSSSLAVRDALLAGFGLSLIPRLYVQAELAEGRLVELLAGWKADETAIHAVYPSRQLAGKTRVFLDFL
TETMAQGHDSPTL*
AnnotationID:2670GeneID:2662
AnnotatorUID: danlee
Modification Date/Time: 2006-02-07 12:12:52
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA2547
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|CAD18061.1| (AL646081) PROBABLE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia
           solanacearum]
          Length = 309

 Score =  213 bits (543), Expect = 9e-55
 Identities = 123/297 (41%), Positives = 181/297 (60%), Gaps = 8/297 (2%)

>dbj|BAC51818.1| (AP005959) transcriptional regulatory protein [Bradyrhizobium
           japonicum USDA 110]
          Length = 323

 Score =  206 bits (525), Expect = 1e-52
 Identities = 128/297 (43%), Positives = 175/297 (58%), Gaps = 6/297 (2%)

>gb|AAN53454.1|AE015485_3 (AE015485) transcriptional regulator, LysR family [Shewanella
           oneidensis MR-1]
          Length = 295

 Score =  203 bits (517), Expect = 9e-52
 Identities = 111/295 (37%), Positives = 171/295 (57%), Gaps = 2/295 (0%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.7% aligned
Score =  136 bits (343), Expect = 3e-33
Identities = 105/298 (35%), Positives = 146/298 (48%), Gaps = 10/298 (3%)

pfam03466, LysR_substrate, LysR substrate binding domain. 
CD-Length = 209 residues, 100.0% aligned
Score =  113 bits (285), Expect = 2e-26
Identities = 77/211 (36%), Positives = 104/211 (49%), Gaps = 6/211 (2%)






   
Genomic Context:






   
Comment:
Verified frame-shift results in absence of the first 5 amino acidds of PAO1 PA2547.


















    ReferenceID:14643




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22472




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33121




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2662_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2662
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4380
                           PA2547_tr
                           translation of PA2547
                           305
                           96.72
                           97.70
                           4
                           1480.0
     

     
     
127896
                           gb|AAG05935.1|AE004682_7
                           (AE004682) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           305
                           96.72
                           97.70
                           4
                           1480.0
     

     
     
127897
                           gb|AAQ61143.1|
                           (AE016922) probable transcriptional regulator, LysR family [Chromobacterium violaceum ATCC 12472]
                           318
                           39.93
                           54.08
                           20
                           566.0
     

     
     
127898
                           emb|CAD18061.1|
                           (AL646081) PROBABLE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum]
                           314
                           39.80
                           58.59
                           18
                           546.0
     

     
     
127899
                           dbj|BAC51818.1|
                           (AP005959) transcriptional regulatory protein [Bradyrhizobium japonicum USDA 110]
                           327
                           39.75
                           54.12
                           30
                           529.0
     

     






      

          
GC ORFID: 45664How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2547Glimmer Score: 

          
Start: 2204547Stop: 2205452

          
Length: 906


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2547 translation of PA2547Homolog Bit Score 577.0

          
Other Homologs:  t_PA0056 (ORF: BLASTX 107.0), t_PA3630 (ORF: BLASTX 106.0), t_PA2547 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGATCACCTCACCGCCCTCAAGGTCTTCCGCGCCGTGGCCGCGAATGGCGGCTTCGCCGCCGCGGCCCGG 
CAGATGAATCTCTCGCCGGCCGCCGTGAGCAAGAACGTCGCCGAGCTGGAAGCGCACCTCAAGGTGCGCCTG 
ATCAATCGCACCACCCGCAGCATGAGCCTGACCGAGGCCGGCGAAGTCTACCGGCAGCGCCTGGAGCGCATC 
CTCGACGACCTCGAGGCCGCCGACGCCGCGCTCACTTCGATGCAGCAGGGCCCCAGCGGCCTGCTGCGGGTC 
AGCGCCCCGCTGACCCTCGCCCTCACCTGCCTGACCCCGGCCATTCCGGCTTTTCTCCAGCGTTATCCGGAC 
CTGCGCCTGGAACTGCTCCTGCAGGACGGCCGCCAGGACCTGATCGCCGAAGGCATCGACCTGGCCCTGCGC 
GGTAGCGACCGGGTTGCGGACTCCGGCCTGGTCGCTCGCCCGCTGCTGATCCTGGAGCACGTGCTCTGCGCG 
GCGCCGGCCTACCTCGGTCAGCATGGCCAGCCGCTGCGGCCGGAGGCCCTGCGCGAACACGAGTGCATCCGC 
TTCAGCCTCTCTGGCCATGCCGACCGCTGGACCTTCCGCAAGGGCCGCGAGTGCGTAGCGGTGCCTATCGCC 
GGGCGTTACCGGGTGTCCTCCAGCCTGGCGGTGCGCGATGCCCTGCTCGCCGGCTTCGGCTTGAGTCTGATC 
CCACGGCTGTACGTACAGGCGGAACTGGCCGAAGGCCGCCTGGTTGAATTGCTGGCCGGCTGGAAGGCCGAC 
GAGACGGCGATCCACGCGGTCTATCCATCGCGCCAACTGGCCGGCAAGACCCGGGTGTTTCTCGACTTCCTG 
ACCGAGACAATGGCGCAGGGCCATGATTCCCCAACGCTGTAA