ViewGene
Locus Name:
GeneID:
Location:

GeneID:4673
TrivialName: PA14_10480
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_10480
PAO1 Ortholog Locus:PA4135
Sequence Length:423
Protein Length:140
Start: 902853
Stop: 903275
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07522.1|AE004830_3 (AE004830) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 140/140 (100%), Positives = 140/140 (100%)
Sequence:
ATGTCAACGCCAAGACCCTCCCTGACCCTGACCCTGTTGCAGGCTCGCGAAGCCGCGATGAGTTTCTTCCGT
CCCTCCCTCAACCAGCACGGCCTCACCGAGCAGCAGTGGCGGGTGATCCGCATCCTGCGCCAGCAGGGCGAG
ATGGAGAGCTACCAGTTGGCCAACCAGGCCTGCATCCTGCGCCCGAGCATGACCGGCGTGCTGGCGCGCCTG
GAGCGCGACGGCATCGTCCGGCGCTGGAAGGCGCCAAAGGACCAGCGGCGGGTCTACGTGAACCTGACGGAG
AAGGGCCAGCAGTGCTTCGTCTCCATGAGCGGCGACATGGAGAAGAACTACCAGCGCATCCAGGAGCGGTTC
GGCGAGGAAAAGCTCGCGCAGTTGCTGGAACTGCTCAACGAGCTGAAGAAGATAAAGCCCTGA
Translation:
MSTPRPSLTLTLLQAREAAMSFFRPSLNQHGLTEQQWRVIRILRQQGEMESYQLANQACILRPSMTGVLARL
ERDGIVRRWKAPKDQRRVYVNLTEKGQQCFVSMSGDMEKNYQRIQERFGEEKLAQLLELLNELKKIKP*
AnnotationID:4679GeneID:4673
AnnotatorUID: danlee
Modification Date/Time: 2005-10-10 13:01:00
Gene Name:
Confidence Code:2
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA4135
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:putative homoprotocatechuate degradation operon regulator
Functional Category Confidence Code:5
COGs:smart00347,pfam01047,COG1846
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO17176.1| (AF346500) HpcR [Photorhabdus luminescens]
          Length = 148

 Score =  142 bits (358), Expect = 3e-34
 Identities = 69/129 (53%), Positives = 89/129 (68%)

>gb|AAN45801.1|AE015444_9 (AE015444) homoprotocatechuate degradative operon repressor
           [Shigella flexneri 2a str. 301]
          Length = 148

 Score =  141 bits (355), Expect = 7e-34
 Identities = 67/128 (52%), Positives = 95/128 (74%)

>emb|CAA86039.1| (Z37980) regulator of the meta operon of 3,4dhpa metabolic pathway
           [Escherichia coli]
          Length = 148

 Score =  141 bits (355), Expect = 7e-34
 Identities = 67/128 (52%), Positives = 95/128 (74%)






 
Structural Features:
smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein
CD-Length = 101 residues,  98.0% aligned
Score = 74.9 bits (184), Expect = 3e-15
Identities = 32/99 (32%), Positives = 57/99 (57%)

pfam01047, MarR, MarR family. 
CD-Length = 104 residues, 100.0% aligned
Score = 74.1 bits (182), Expect = 6e-15
Identities = 34/104 (32%), Positives = 61/104 (58%)

COG1846, MarR, Transcriptional regulators [Transcription]
CD-Length = 126 residues,  96.0% aligned
Score = 65.3 bits (158), Expect = 3e-12
Identities = 37/121 (30%), Positives = 63/121 (52%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9347




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26487




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36871




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4673_cdd.html


    		




 
URL:

















    ReferenceID:36972




  
Author/Investigator(s):
        Jenkins JR, Cooper RA.





  
Title:
        Molecular cloning, expression, and analysis of the genes of the homoprotocatechuate catabolic pathway of Escherichia coli C.




  
PubMed:
        3053656


MedLine:
        




    
Source:
J Bacteriol. 1988 Nov;170(11):5317-24.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3053656









           
Homologs By Global Alignment 

           

       



     
Gene ID:4673
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7040
                           PA4135_tr
                           translation of PA4135
                           140
                           99.99
                           99.99
                           0
                           714.0
     

     
     
186044
                           gb|AAG07522.1|AE004830_3
                           (AE004830) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           140
                           99.99
                           99.99
                           0
                           714.0
     

     
     
186046
                           gb|AAO17176.1|
                           (AF346500) HpcR [Photorhabdus luminescens]
                           152
                           47.36
                           60.52
                           16
                           352.0
     

     
     
186045
                           emb|CAE13286.1|
                           (BX571862) homoprotocatechuate degradation operon regulator [Photorhabdus luminescens subsp. laumondii TTO1]
                           152
                           46.71
                           61.84
                           16
                           353.0
     

     
     
186051
                           dbj|BAA09790.1|
                           (D63524) MoaI protein [Klebsiella aerogenes]
                           149
                           44.96
                           63.75
                           12
                           344.0
     

     






      

          
GC ORFID: 47675How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4135Glimmer Score: 

          
Start: 4051084Stop: 4050662

          
Length: 423


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4135 translation of PA4135Homolog Bit Score 279.0

          
Other Homologs:  t_PA4135 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCAACGCCAAGACCCTCCCTGACCCTGACCCTGTTGCAGGCTCGCGAAGCCGCGATGAGTTTCTTCCGT 
CCCTCCCTCAACCAGCACGGCCTCACCGAGCAGCAGTGGCGGGTGATCCGCATCCTGCGCCAGCAGGGCGAG 
ATGGAGAGCTACCAGTTGGCCAACCAGGCCTGCATCCTGCGCCCGAGCATGACCGGCGTGCTGGCGCGCCTG 
GAGCGCGACGGCATCGTCCGGCGCTGGAAGGCGCCAAAGGACCAGCGGCGGGTCTACGTGAACCTGACGGAG 
AAGGGCCAGCAGTGCTTCGTCTCCATGAGCGGCGACATGGAGAAGAACTACCAGCGCATCCAGGAGCGGTTC 
GGCGAGGAAAAGCTCGCGCAGTTGCTGGAACTGCTCAACGAGCTGAAGAAGATAAAGCCCTGA