ViewGene
Locus Name:
GeneID:
Location:

GeneID:1038
TrivialName: PA14_48830
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_48830
PAO1 Ortholog Locus:PA1196
Sequence Length:1401
Protein Length:466
Start: 4341039
Stop: 4339639
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04585.1|AE004550_1 (AE004550) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 464/466 (99%), Positives = 464/466 (99%)
Sequence:
ATGGCGCTTGTCGAGGAGCCGACGATTTCCGCGCGAAGCGGTGAACTAGCCTGGTTGGTGGACTGCCTGGCG
CCGATTTTCGACGGCCTGCGGCAACCGGTCACGGTGGTCGACCCCTCCGGTCGCTTCGTCTACTACAACCGT
GCCAGCGGCCTGCTCGATGGTCTCGACCCGCAGCGGGCGCTGGGCATGCACCTGTTGCAGAGCGCTCCCTGG
CTGGCGGCCGAGCAAAGCACGCTGTTGCGTTGCCTGGCCGAAGGGCGGCCGTCGATCGATACGCTGCAGGCC
TACGTGGGGGCCGGCGGCGAGCTGTTGCAGTATCGCCACCGGGCGATCCCGCTGCGCGGGCGCGACGGTTGC
CTGCTCGGCGCGATGGAGCTCGGCGAAGTCGTCGCCGAGACCGAAGAGGCCGCAGGCCCGGCGGATTGCCCG
AACATCCTGAGCGTGGCGCCGAGCCTGCTGCGGCAGTTGCAGCGCCTGGACGTCTTCGCGGCCACCGACCTG
CCGCTGCTGATCCATGGCGAGACCGGCACCGGCAAGGAACTGTTCGCCCGTCGCGCCCATGCCCTGAGCCCG
CGACGCAGCGGTCCGATGATCAGCCTGAACTGCGCAGCGATTCCCGAGACGCTGCTGGAAAGTACCCTGTTC
GGCACCACCCGCGGCGCTTTCACCGGCGCCGAGAACCGCAAGGGCATGTTCGCCCTGGCGCAGGGCGGCAGC
TTGTTCCtCGACGAGATCAATTCCATGCCGATGGCCATGCAGAGCAAGCTGCTGCGGGTCCTGCAGGACGGC
AGCTACCTGCCTCTGGGCAGCCTGAGCCCGCAGCGGGCCGATGTACGCCTGATCGCGGCGAGCAACCAGCCG
CCGCGCCAGGCGATCGCCGAGGGACGCCTGCGCGAGGACCTGTACTACCGTCTGGACGTGGGCAGCCTGTGC
ATCCCGCCGCTGCGCGAGCGCCCCGGCGATGTGGAACTGCTGGCACGGGCGTTCGTCCGTCGCGATGCGCGC
AGCCTCAACCCACGTGTCACCGCCCTTGGCGAACGGGCGCTGGCGCAGTTGCTGGCCTGCGACTGGCCGGGC
AACGTCCGGCAACTGGAAAACGTGATCCGACGCAGCCTGTTGCTGCACGGGGAGGGCGGCGCACTGCTGGAT
GAGGTGGCGTTCGCCGACGACGGCGCCGAGGCCGTGGGCGGCGAGGCCGCGCTCTCGATGAACAGCGCGGCG
GTCGGAGGCCTGCGCGAGGCGCTGGCGCAACAGGAGCGCAACCTGATAGAAGACGCCTTGCGCCAGGCGCGC
GGCAATCTCTCCCGGGCCGCCGCCCGGTTGCGGATTCCGCGCACGACCCTGCTCGGGCGCATGCGCCGGCTC
GGCTTGCCGGCTTCCCTCGATCCGCCAGCCTGA
Translation:
MALVEEPTISARSGELAWLVDCLAPIFDGLRQPVTVVDPSGRFVYYNRASGLLDGLDPQRALGMHLLQSAPW
LAAEQSTLLRCLAEGRPSIDTLQAYVGAGGELLQYRHRAIPLRGRDGCLLGAMELGEVVAETEEAAGPADCP
NILSVAPSLLRQLQRLDVFAATDLPLLIHGETGTGKELFARRAHALSPRRSGPMISLNCAAIPETLLESTLF
GTTRGAFTGAENRKGMFALAQGGSLFLDEINSMPMAMQSKLLRVLQDGSYLPLGSLSPQRADVRLIAASNQP
PRQAIAEGRLREDLYYRLDVGSLCIPPLRERPGDVELLARAFVRRDARSLNPRVTALGERALAQLLACDWPG
NVRQLENVIRRSLLLHGEGGALLDEVAFADDGAEAVGGEAALSMNSAAVGGLREALAQQERNLIEDALRQAR
GNLSRAAARLRIPRTTLLGRMRRLGLPASLDPPA*
AnnotationID:1047GeneID:1038
AnnotatorUID: diggins
Modification Date/Time: 2005-02-21 16:04:17
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA1196
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG3829,pfam00158
Secondary Functional Category(ies):signal transduction mechanisms
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAL21262.1| (AE008806) putative regulatory protein [Salmonella typhimurium LT2]
          Length = 475

 Score =  327 bits (839), Expect = 7e-89
 Identities = 193/469 (41%), Positives = 271/469 (57%), Gaps = 20/469 (4%)








 
Structural Features:
COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, 
and DNA-binding domains 
[Transcription / Signal transduction mechanisms]
CD-Length = 560 residues,  82.5% aligned
Score =  497 bits (1280), Expect = e-141
Identities = 201/471 (42%), Positives = 263/471 (55%), Gaps = 21/471 (4%)

pfam00158, Sigma54_activat, Sigma-54 interaction domain.
CD-Length = 222 residues,  97.7% aligned
Score =  264 bits (677), Expect = 3e-71
Identities = 114/217 (52%), Positives = 151/217 (69%), Gaps = 1/217 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2079




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19221




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37575




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1038_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1038
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1864
                           PA1196_tr
                           translation of PA1196
                           466
                           99.57
                           99.57
                           0
                           2336.0
     

     
     
64481
                           gb|AAG04585.1|AE004550_1
                           (AE004550) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           466
                           99.57
                           99.57
                           0
                           2336.0
     

     
     
64482
                           gb|AAL21262.1|
                           (AE008806) putative regulatory protein [Salmonella typhimurium LT2]
                           490
                           40.00
                           55.91
                           39
                           852.0
     

     
     
64484
                           emb|CAD07593.1|
                           (AL627274) putative transcriptional regulator [Salmonella enterica subsp. enterica serovar Typhi]
                           490
                           39.79
                           55.71
                           39
                           844.0
     

     
     
64483
                           gb|AAO68209.1|
                           (AE016835) putative transcriptional regulator [Salmonella enterica subsp. enterica serovar Typhi Ty2]
                           490
                           39.79
                           55.71
                           39
                           844.0
     

     






      

          
GC ORFID: 44040How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1196Glimmer Score: 

          
Start: 612869Stop: 614269

          
Length: 1401


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1196 translation of PA1196Homolog Bit Score 904.0

          
Other Homologs:  psyr_15may02_Scaffold8_revised_gene7914 (ORF: BLASTX 210.0), t_PA2354 (ORF: BLASTX 209.0), psyr_15may02_Scaffold1_revised_gene1290 (ORF: BLASTX 207.0), t_PA5166 (ORF: BLASTX 206.0), t_PA2359 (ORF: BLASTX 204.0), psyr_15may02_Scaffold14_revised_gene2286 (ORF: BLASTX 197.0), psyr_15may02_Scaffold3_revised_gene4480 (ORF: BLASTX 194.0), t_PA1945 (ORF: BLASTX 192.0), t_PA1196 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCGCTTGTCGAGGAGCCGACGATTTCCGCGCGAAGCGGTGAACTAGCCTGGTTGGTGGACTGCCTGGCG 
CCGATTTTCGACGGCCTGCGGCAACCGGTCACGGTGGTCGACCCCTCCGGTCGCTTCGTCTACTACAACCGT 
GCCAGCGGCCTGCTCGATGGTCTCGACCCGCAGCGGGCGCTGGGCATGCACCTGTTGCAGAGCGCTCCCTGG 
CTGGCGGCCGAGCAAAGCACGCTGTTGCGTTGCCTGGCCGAAGGGCGGCCGTCGATCGATACGCTGCAGGCC 
TACGTGGGGGCCGGCGGCGAGCTGTTGCAGTATCGCCACCGGGCGATCCCGCTGCGCGGGCGCGACGGTTGC 
CTGCTCGGCGCGATGGAGCTCGGCGAAGTCGTCGCCGAGACCGAAGAGGCCGCAGGCCCGGCGGATTGCCCG 
AACATCCTGAGCGTGGCGCCGAGCCTGCTGCGGCAGTTGCAGCGCCTGGACGTCTTCGCGGCCACCGACCTG 
CCGCTGCTGATCCATGGCGAGACCGGCACCGGCAAGGAACTGTTCGCCCGTCGCGCCCATGCCCTGAGCCCG 
CGACGCAGCGGTCCGATGATCAGCCTGAACTGCGCAGCGATTCCCGAGACGCTGCTGGAAAGTACCCTGTTC 
GGCACCACCCGCGGCGCTTTCACCGGCGCCGAGAACCGCAAGGGCATGTTCGCCCTGGCGCAGGGCGGCAGC 
TTGTTCCtCGACGAGATCAATTCCATGCCGATGGCCATGCAGAGCAAGCTGCTGCGGGTCCTGCAGGACGGC 
AGCTACCTGCCTCTGGGCAGCCTGAGCCCGCAGCGGGCCGATGTACGCCTGATCGCGGCGAGCAACCAGCCG 
CCGCGCCAGGCGATCGCCGAGGGACGCCTGCGCGAGGACCTGTACTACCGTCTGGACGTGGGCAGCCTGTGC 
ATCCCGCCGCTGCGCGAGCGCCCCGGCGATGTGGAACTGCTGGCACGGGCGTTCGTCCGTCGCGATGCGCGC 
AGCCTCAACCCACGTGTCACCGCCCTTGGCGAACGGGCGCTGGCGCAGTTGCTGGCCTGCGACTGGCCGGGC 
AACGTCCGGCAACTGGAAAACGTGATCCGACGCAGCCTGTTGCTGCACGGGGAGGGCGGCGCACTGCTGGAT 
GAGGTGGCGTTCGCCGACGACGGCGCCGAGGCCGTGGGCGGCGAGGCCGCGCTCTCGATGAACAGCGCGGCG 
GTCGGAGGCCTGCGCGAGGCGCTGGCGCAACAGGAGCGCAACCTGATAGAAGACGCCTTGCGCCAGGCGCGC 
GGCAATCTCTCCCGGGCCGCCGCCCGGTTGCGGATTCCGCGCACGACCCTGCTCGGGCGCATGCGCCGGCTC 
GGCTTGCCGGCTTCCCTCGATCCGCCAGCCTGA