ViewGene
Locus Name:
GeneID:
Location:

GeneID:4381
TrivialName: PA14_11450
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_11450
PAO1 Ortholog Locus:PA4052
Sequence Length:480
Protein Length:159
Start: 992358
Stop: 992837
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07439.1|AE004821_12 (AE004821) NusB protein [Pseudomonas aeruginosa PAO1]
Identities = 159/159 (100%), Positives = 159/159 (100%)
Sequence:
GTGAGCAATCAAGACAGCGGCAACCCGGCAGCCAAGCCGCCGAAAGGCAAGACCGCCGCTCGCCGCAAGGCC
CGCAGCCTGGCCGTCCAGGCCCTGTACTCCTGGCAGATCGCCGGCCAGCCCCTGCACGAGATCGAGGCGCAG
TTCCGCACCGACAACGACTTCTCCGAGGTCGACGGCGCCTACTTCCACGAGATCCTGCACGGCGTGCCGCGG
CAGAAGAGCGAGCTGGACTCCACCTTCGAGCCCTGCCTGGACCGCCCGCTGGCCGAGATCGACCCGGTCGAG
CTGGCCATCCTGCGGCTGTCCACCTACGAGCTGCGCAACCGCATCGACGTGCCCTACAAGGTAGTGATCAAC
GAGGGCATCGAGCTGGCCAAGACCTTCGGCGCCACCGACGGCCACAAGTTCGTCAACGGCGTGCTCGACAAG
CTGGCGCCGCGCCTGCGCGCCGCCGAGCTGCGCGGCGGCAAGCGCTGA
Translation:
MSNQDSGNPAAKPPKGKTAARRKARSLAVQALYSWQIAGQPLHEIEAQFRTDNDFSEVDGAYFHEILHGVPR
QKSELDSTFEPCLDRPLAEIDPVELAILRLSTYELRNRIDVPYKVVINEGIELAKTFGATDGHKFVNGVLDK
LAPRLRAAELRGGKR*
AnnotationID:4387GeneID:4381
AnnotatorUID: danlee
Modification Date/Time: 2006-01-27 15:03:47
Gene Name:nusB
Confidence Code:2
GeneProduct:NusB
Cell Localization:()
Synonyms:ssyB
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0781,cd00619,pfam01029
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
emb|CAA45737.1| (X64395) nusB (ssyB) [Escherichia coli]  	Length: 159
PctIdentity: 47.16
PctSimilarity: 58.49
Gaps: 20
BitScore: 365.0






 
Structural Features:
gnl|CDD|10649 COG0781, NusB, Transcription termination factor [Transcription]
Length = 151
Score =  148 bits (376), Expect = 4e-37
Identities = 73/148 (49%), Positives = 86/148 (58%), Gaps = 7/148 (4%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15072




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25906




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34658




  
Author/Investigator(s):
        Ishii S, Hatada E, Maekawa T, Imamoto F.





  
Title:
        Molecular cloning and nucleotide sequencing of the nusB gene of E. coli.




  
PubMed:
        6330694


MedLine:
        




    
Source:
Nucleic Acids Res. 1984 Jun 25;12(12):4987-95.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6330694

















    ReferenceID:34659




  
Author/Investigator(s):
        Ghosh B, Das A.





  
Title:
        nusB: a protein factor necessary for transcription antitermination in vitro by phage lambda N gene product.




  
PubMed:
        6093096


MedLine:
        




    
Source:
Proc Natl Acad Sci U S A. 1984 Oct;81(20):6305-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6093096









           
Homologs By Global Alignment 

           

       



     
Gene ID:4381
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6717
                           PA4052_tr
                           translation of PA4052
                           159
                           99.99
                           99.99
                           0
                           819.0
     

     
     
180446
                           gb|AAG07439.1|AE004821_12
                           (AE004821) NusB protein [Pseudomonas aeruginosa PAO1]
                           159
                           99.37
                           99.99
                           0
                           816.0
     

     
     
180447
                           gb|AAN66145.1|AE016242_13
                           (AE016776) N utilization substance protein B [Pseudomonas putida KT2440]
                           168
                           63.09
                           74.40
                           11
                           527.0
     

     
     
180448
                           gb|AAO54236.1|
                           (AE016858) N utilization substance protein B [Pseudomonas syringae pv. tomato str. DC3000]
                           165
                           63.03
                           75.15
                           6
                           523.0
     

     
     
180449
                           gb|AAM84583.1|AE013703_13
                           (AE013703) transcription termination; L factor [Yersinia pestis KIM]
                           159
                           47.79
                           60.37
                           21
                           378.0
     

     






      

          
GC ORFID: 47383How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4052Glimmer Score: 

          
Start: 3961579Stop: 3961100

          
Length: 480


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4052 translation of PA4052Homolog Bit Score 320.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5266 (ORF: BLASTX 206.0), t_PA4052 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGAGCAATCAAGACAGCGGCAACCCGGCAGCCAAGCCGCCGAAAGGCAAGACCGCCGCTCGCCGCAAGGCC 
CGCAGCCTGGCCGTCCAGGCCCTGTACTCCTGGCAGATCGCCGGCCAGCCCCTGCACGAGATCGAGGCGCAG 
TTCCGCACCGACAACGACTTCTCCGAGGTCGACGGCGCCTACTTCCACGAGATCCTGCACGGCGTGCCGCGG 
CAGAAGAGCGAGCTGGACTCCACCTTCGAGCCCTGCCTGGACCGCCCGCTGGCCGAGATCGACCCGGTCGAG 
CTGGCCATCCTGCGGCTGTCCACCTACGAGCTGCGCAACCGCATCGACGTGCCCTACAAGGTAGTGATCAAC 
GAGGGCATCGAGCTGGCCAAGACCTTCGGCGCCACCGACGGCCACAAGTTCGTCAACGGCGTGCTCGACAAG 
CTGGCGCCGCGCCTGCGCGCCGCCGAGCTGCGCGGCGGCAAGCGCTGA