ViewGene
Locus Name:
GeneID:
Location:

GeneID:4540
TrivialName: PA14_35540
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_35540
PAO1 Ortholog Locus:PA2246
Sequence Length:462
Protein Length:153
Start: 3159938
Stop: 3160399
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05634.1|AE004650_5 (AE004650) transcriptional regulator BkdR [Pseudomonas aeruginosa PAO1]
Identities = 153/153 (100%), Positives = 153/153 (100%)
Sequence:
ATGGCTGAACTCGACCGCATCGACCTGAAAATCCTCCGCGCCCTGGCCGACGACGGCCGCCTGAGCTGGCGC
GATCTCGCCCAGAAGGTCGGCCTGTCGCTGACGCCGACGCTGCGCCGGGTACGCCGCCTGGAAGAGGAACAC
TACATCCAGGGCTACTTCGCCCGGCTCGACGAGGAGCGCCTGTCCGGGGCGATGAGCGTGTTCGTCTCGGTG
TCCCTGGAAAAGCAGACCGGCGACTACCTCGCGCGCTTCGAGGAACGCATCGTCGATGCGCCGCAGGTCATG
AGCTGTTTCCAGATGACCGGCGATGCGGACTACATGCTGCGGGTTGTGGTCAAGGATCTCGCCGCCTACCAG
GCGTTCCTCACCAATACCCTGACCTGCATTCCCGGCGTGGCTGGCATCAAGTCGGCCTTCGCGCTGAAGTCG
GTGATGCTGCGCTCGGCCCCGCCGCTCTAA
Translation:
MAELDRIDLKILRALADDGRLSWRDLAQKVGLSLTPTLRRVRRLEEEHYIQGYFARLDEERLSGAMSVFVSV
SLEKQTGDYLARFEERIVDAPQVMSCFQMTGDADYMLRVVVKDLAAYQAFLTNTLTCIPGVAGIKSAFALKS
VMLRSAPPL*
AnnotationID:4546GeneID:4540
AnnotatorUID: diggins
Modification Date/Time: 2005-03-04 06:06:01
Gene Name:bkdR
Confidence Code:2
GeneProduct: transcriptional regulator BkdR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:transcriptional regulator, AsnC family
Functional Category Confidence Code:5
COGs:COG1522,pfam01037,smart00344
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAL44289.1| (AE009278) transcriptional regulator, AsnC family [Agrobacterium
           tumefaciens str. C58 (U. Washington)]
          Length = 157

 Score =  153 bits (387), Expect = 3e-37
 Identities = 78/150 (52%), Positives = 105/150 (70%), Gaps = 1/150 (0%)







 
Structural Features:
COG1522, Lrp, Transcriptional regulators [Transcription]
CD-Length = 154 residues,  98.7% aligned
Score =  134 bits (339), Expect = 3e-33
Identities = 65/153 (42%), Positives = 98/153 (64%), Gaps = 1/153 (0%)

pfam01037, AsnC_trans_reg, AsnC family.
CD-Length = 104 residues,  99.0% aligned
Score =  108 bits (271), Expect = 4e-25
Identities = 47/103 (45%), Positives = 71/103 (68%)

smart00344, HTH_ASNC, helix_turn_helix ASNC type
CD-Length = 104 residues, 100.0% aligned
Score =  106 bits (266), Expect = 1e-24
Identities = 48/106 (45%), Positives = 68/106 (64%), Gaps = 2/106 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9081




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26223




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32528




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4540_cdd.html


    		




 
URL:

















    ReferenceID:34440




  
Author/Investigator(s):
        Madhusudhan KT, Lorenz D, Sokatch JR.





  
Title:
        The bkdR gene of Pseudomonas putida is required for expression of the bkd operon and encodes a protein related to Lrp of Escherichia coli.




  
PubMed:
        8320210


MedLine:
        




    
Source:
J Bacteriol. 1993 Jul;175(13):3934-40.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8320210









           
Homologs By Global Alignment 

           

       



     
Gene ID:4540
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6899
                           PA2246_tr
                           translation of PA2246
                           153
                           99.99
                           99.99
                           0
                           763.0
     

     
     
184124
                           gb|AAG05634.1|AE004650_5
                           (AE004650) transcriptional regulator BkdR [Pseudomonas aeruginosa PAO1]
                           153
                           99.99
                           99.99
                           0
                           763.0
     

     
     
184125
                           gb|AAL44289.1|
                           (AE009278) transcriptional regulator, AsnC family [Agrobacterium tumefaciens str. C58 (U. Washington)]
                           158
                           49.36
                           66.45
                           6
                           383.0
     

     
     
184126
                           gb|AAK89918.1|
                           (AE008334) AGR_L_2709p [Agrobacterium tumefaciens str. C58 (Cereon)]
                           158
                           49.36
                           66.45
                           6
                           383.0
     

     
     
184128
                           emb|CAE41420.1|
                           (BX640414) AsnC-family transcriptional regulator [Bordetella pertussis] [Bordetella pertussis Tohama I]
                           162
                           44.44
                           59.25
                           9
                           324.0
     

     






      

          
GC ORFID: 47542How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2246Glimmer Score: 

          
Start: 1793978Stop: 1793517

          
Length: 462


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2246 translation of PA2246Homolog Bit Score 298.0

          
Other Homologs:  t_PA4508 (ORF: BLASTX 123.0), psyr_15may02_Scaffold4_revised_gene5719 (ORF: BLASTX 118.0), psyr_15may02_Scaffold2_revised_gene3924 (ORF: BLASTX 117.0), t_PA2082 (ORF: BLASTX 107.0), t_PA2246 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTGAACTCGACCGCATCGACCTGAAAATCCTCCGCGCCCTGGCCGACGACGGCCGCCTGAGCTGGCGC 
GATCTCGCCCAGAAGGTCGGCCTGTCGCTGACGCCGACGCTGCGCCGGGTACGCCGCCTGGAAGAGGAACAC 
TACATCCAGGGCTACTTCGCCCGGCTCGACGAGGAGCGCCTGTCCGGGGCGATGAGCGTGTTCGTCTCGGTG 
TCCCTGGAAAAGCAGACCGGCGACTACCTCGCGCGCTTCGAGGAACGCATCGTCGATGCGCCGCAGGTCATG 
AGCTGTTTCCAGATGACCGGCGATGCGGACTACATGCTGCGGGTTGTGGTCAAGGATCTCGCCGCCTACCAG 
GCGTTCCTCACCAATACCCTGACCTGCATTCCCGGCGTGGCTGGCATCAAGTCGGCCTTCGCGCTGAAGTCG 
GTGATGCTGCGCTCGGCCCCGCCGCTCTAA