ViewGene
Locus Name:
GeneID:
Location:

GeneID:4709
TrivialName: PA14_73420
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_73420
PAO1 Ortholog Locus:PA5569
Sequence Length:408
Protein Length:135
Start: 6537456
Stop: 6537049
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08954.1|AE004968_8 (AE004968) ribonuclease P protein component [Pseudomonas aeruginosa PAO1]
Identities = 135/135 (100%), Positives = 135/135 (100%)
Sequence:
GTGGTGAGTCGGGACTTCGACCGGGACAAGCGTCTACTGACAGCCCGGCAATTCAGCGCAGTCTTCGACTCT
CCGACCGGCAAGGTCCCCGGCAAGCACGTCCTGCTGCTGGCGCGCGAGAACGGTCTCGATCACCCCCGCCTG
GGCCTGGTGATCGGCAAGAAGAACGTCAAGCTCGCCGTCCAGCGCAATCGCCTCAAACGCCTGATCCGCGAA
TCGTTCCGCCATAACCAGGAAACCCTGGCTGGCTGGGATATCGTGGTGATCGCGCGCAAAGGCCTGGGCGAA
CTGGAAAATCCGGAGCTGCACCAGCAGTTCGGCAAGCTCTGGAAACGCCTGTTGCGCAATCGACCTCGCACG
GAAAGCCCTGCTGACGCCCCTGGCGTGGCCGACGGTACTCATGCATAG
Translation:
MVSRDFDRDKRLLTARQFSAVFDSPTGKVPGKHVLLLARENGLDHPRLGLVIGKKNVKLAVQRNRLKRLIRE
SFRHNQETLAGWDIVVIARKGLGELENPELHQQFGKLWKRLLRNRPRTESPADAPGVADGTHA*
AnnotationID:4715GeneID:4709
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 09:09:53
Gene Name:rnpA
Confidence Code:2
GeneProduct:ribonuclease P protein component
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00825,COG0594
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65642.1|AE016190_8 (AE016774) ribonuclease P protein component [Pseudomonas putida
           KT2440]
          Length = 134

 Score =  202 bits (515), Expect = 2e-52
 Identities = 99/129 (76%), Positives = 114/129 (88%)

>gb|AAO59027.1| (AE016876) ribonuclease P protein component [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 133

 Score =  196 bits (498), Expect = 2e-50
 Identities = 96/134 (71%), Positives = 114/134 (85%), Gaps = 1/134 (0%)

>gb|AAC22661.1| (U32781) ribonuclease P (rnpA) [Haemophilus influenzae Rd]
          Length = 119

 Score =  107 bits (267), Expect = 1e-23
 Identities = 54/115 (46%), Positives = 77/115 (66%), Gaps = 1/115 (0%)








 
Structural Features:
pfam00825, Ribonuclease_P, Ribonuclease P.
CD-Length = 108 residues, 100.0% aligned
Score =  116 bits (292), Expect = 1e-27
Identities = 53/109 (48%), Positives = 67/109 (61%), Gaps = 1/109 (0%)

COG0594, RnpA, RNase P protein component 
[Translation, ribosomal structure and biogenesis]
CD-Length = 117 residues,  96.6% aligned
Score =  109 bits (273), Expect = 2e-25
Identities = 54/113 (47%), Positives = 72/113 (63%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15164




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26559




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33365




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4709_cdd.html


    		




 
URL:

















    ReferenceID:35541




  
Author/Investigator(s):
        Hansen FG, Hansen EB, Atlung T.





  
Title:
        Physical mapping and nucleotide sequence of the rnpA gene that encodes the protein component of ribonuclease P in Escherichia coli.




  
PubMed:
        2415431


MedLine:
        




    
Source:
Gene. 1985;38(1-3):85-93.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2415431

















    ReferenceID:35545




  
Author/Investigator(s):
        Clark MA, Baumann L, Baumann P.





  
Title:
        Sequence analysis of a 34.7-kb DNA segment from the genome of Buchnera aphidicola (endosymbiont of aphids) containing groEL, dnaA, the atp operon, gidA, and rho.




  
PubMed:
        9516544


MedLine:
        




    
Source:
Curr Microbiol. 1998 Mar;36(3):158-63.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9516544

















    ReferenceID:35552




  
Author/Investigator(s):
        Fsihi H, De Rossi E, Salazar L, Cantoni R, Labo M, Riccardi G, Takiff HE, Eiglmeier K, Bergh S, Cole ST.





  
Title:
        Gene arrangement and organization in a approximately 76 kb fragment encompassing the oriC region of the chromosome of Mycobacterium leprae.




  
PubMed:
        8969512


MedLine:
        




    
Source:
Microbiology. 1996 Nov;142 ( Pt 11):3147-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8969512









           
Homologs By Global Alignment 

           

       



     
Gene ID:4709
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7079
                           PA5569_tr
                           translation of PA5569
                           135
                           99.99
                           99.99
                           0
                           698.0
     

     
     
186776
                           gb|AAG08954.1|AE004968_8
                           (AE004968) ribonuclease P protein component [Pseudomonas aeruginosa PAO1]
                           135
                           99.25
                           99.99
                           0
                           695.0
     

     
     
186777
                           gb|AAN65642.1|AE016190_8
                           (AE016774) ribonuclease P protein component [Pseudomonas putida KT2440]
                           135
                           74.07
                           85.92
                           1
                           509.0
     

     
     
186778
                           emb|CAA44415.1|
                           (X62540) unnamed protein product [Pseudomonas putida]
                           135
                           73.33
                           85.18
                           2
                           505.0
     

     
     
186779
                           gb|AAO59027.1|
                           (AE016876) ribonuclease P protein component [Pseudomonas syringae pv. tomato str. DC3000]
                           135
                           71.11
                           84.44
                           2
                           500.0
     

     






      

          
GC ORFID: 47711How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5569Glimmer Score: 

          
Start: 5801145Stop: 5800738

          
Length: 408


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA5569 translation of PA5569Homolog Bit Score 273.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene4116 (ORF: BLASTX 179.0), t_PA5569 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGTGAGTCGGGACTTCGACCGGGACAAGCGTCTACTGACAGCCCGGCAATTCAGCGCAGTCTTCGACTCT 
CCGACCGGCAAGGTCCCCGGCAAGCACGTCCTGCTGCTGGCGCGCGAGAACGGTCTCGATCACCCCCGCCTG 
GGCCTGGTGATCGGCAAGAAGAACGTCAAGCTCGCCGTCCAGCGCAATCGCCTCAAACGCCTGATCCGCGAA 
TCGTTCCGCCATAACCAGGAAACCCTGGCTGGCTGGGATATCGTGGTGATCGCGCGCAAAGGCCTGGGCGAA 
CTGGAAAATCCGGAGCTGCACCAGCAGTTCGGCAAGCTCTGGAAACGCCTGTTGCGCAATCGACCTCGCACG 
GAAAGCCCTGCTGACGCCCCTGGCGTGGCCGACGGTACTCATGCATAG