ViewGene
Locus Name:
GeneID:
Location:

GeneID:923
TrivialName: PA14_58100
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_58100
PAO1 Ortholog Locus:PA4477
Sequence Length:1458
Protein Length:485
Start: 5173690
Stop: 5172233
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07865.1|AE004861_6 (AE004861) cytoplasmic axial filament protein [Pseudomonas aeruginosa PAO1]
Identities = 485/485 (100%), Positives = 485/485 (100%)
Sequence:
ATGAGCGAAGAGATCCTGATCAATATCACGCCGATGGAGTCGCGCGTGGCGGTGGTGGAAAACGGCGTCCTG
CAGGAAGTGCATGTCGAACGCACCCAGCGGCGCGGCATCGTCGGCAATATCTACAAGGGGCGGGTGGTACGG
GTACTGCCGGGGATGCAGGCGGCGTTCGTCGACATCGGCCTGGAACGTGCGGCGTTCATCCATGCCGCCGAG
ATATCCAATCGCGAAGGCAGCGCTGTGGAAAGCATCAGTGCCCTGGTCCATGAGGGGCAGGCGCTGGTGGTG
CAGGTGACCAAGGATCCGATCGGCACCAAGGGCGCACGGCTGACCACCCACCTGTCGATTCCTTCGCGCTAT
CTGGTGTACATGCCGCGCACCAGCCATGTCGGGATATCCCTGCGGATCGAGGACGAAGTCGAGCGCGAGCGC
CTGAAGAAGGTGGTGGCCGACTGCGTGGCGGCGGAAGGCATCGAGGGGCAGGGCGGCTTCATTCTGCGCACC
GCCGCGGAAGGTGCGGGCGAGGACGAGATTCTCGCCGACATCCGCTACCTTCGCCGGCTATGGGACCAGATC
GCCGCGCAGATCCAGACCGTCGGCGCGCCTTCGGTGATCTACGAAGACCTGTCCCTGGCGATCCGTACCCTG
CGCGACCTGGTGAACCCGCGGATCGAGAAGATCCGCATCGACTCGCGAGAGAACTTCCAGAAGATCACTTCC
TTCGTCGAAGAATTGATGCCGGAGATTTCCGATCGCCTCGAACATTACCCGGGCGAGCGACCGATCTTCGAT
CTCTACGGCGTCGAGGACGAAATCCAGAAAGCCCTGGAGCGCAAGGTACTGCTGAAGTCCGGCGGCTACCTG
ATCGTCGATCCGACCGAGGCGATGACCACCATCGACGTGAACACCGGCGCCTTCGTCGGCCATCGCAACCTC
GAGGAAACCATCTTCAAGACCAACCTCGAGGCGGCCACCGCGATCGCCCGCCAACTGCGCCTGCGCAACCTG
GGCGGGATCATCATCATCGACTTCATCGACATGGAGGACGAGGAGCATCGCCGGCAGGTCCTGCGCACCCTG
GAGAAGCAACTGGAGCGCGACCACGCGAAGACCAACATCATCGGCATCACCGAGTTGGGCCTGGTGCAGATG
ACCCGCAAGCGCACCCGCGAAAGCCTGGTGCAGATCCTTTGCGAGCCGTGTCCCTGCTGTCAGGGACGCGGC
ATGCTGAAGACTGCGGAAACCACCTGCTACGAGATTTTCCGCGAGATTCTCCGCGAGGCACGTGCCTACCAG
GCCGACTCCTACCTGGTGCTGGCCAACCAGAAGGTGGTGGACCGGCTGCTCGACGAGGAGTCGGGTAACGTC
GCCGATCTCGAGGCGTTCATCGGCCGCACCATCAAGTTCCAGGTCGAGGCGATGTACTCGCAGGAGCAATAT
GACGTGGTCCTGCTCTGA
Translation:
MSEEILINITPMESRVAVVENGVLQEVHVERTQRRGIVGNIYKGRVVRVLPGMQAAFVDIGLERAAFIHAAE
ISNREGSAVESISALVHEGQALVVQVTKDPIGTKGARLTTHLSIPSRYLVYMPRTSHVGISLRIEDEVERER
LKKVVADCVAAEGIEGQGGFILRTAAEGAGEDEILADIRYLRRLWDQIAAQIQTVGAPSVIYEDLSLAIRTL
RDLVNPRIEKIRIDSRENFQKITSFVEELMPEISDRLEHYPGERPIFDLYGVEDEIQKALERKVLLKSGGYL
IVDPTEAMTTIDVNTGAFVGHRNLEETIFKTNLEAATAIARQLRLRNLGGIIIIDFIDMEDEEHRRQVLRTL
EKQLERDHAKTNIIGITELGLVQMTRKRTRESLVQILCEPCPCCQGRGMLKTAETTCYEIFREILREARAYQ
ADSYLVLANQKVVDRLLDEESGNVADLEAFIGRTIKFQVEAMYSQEQYDVVLL*
AnnotationID:932GeneID:923
AnnotatorUID: diggins
Modification Date/Time: 2005-05-03 11:11:56
Gene Name:cafA
Confidence Code:2
GeneProduct:cytoplasmic axial filament protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1530
Secondary Functional Category(ies):
EC Number:3.1.4.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66562.1|AE016284_10 (AE016777) cytoplasmic axial filament protein [Pseudomonas putida
           KT2440]
          Length = 485

 Score =  840 bits (2171), Expect = 0.0
 Identities = 429/485 (88%), Positives = 456/485 (94%)

>gb|AAO57917.1| (AE016872) ribonuclease G [Pseudomonas syringae pv. tomato str.
           DC3000]
          Length = 485

 Score =  837 bits (2162), Expect = 0.0
 Identities = 427/485 (88%), Positives = 454/485 (93%)






 
Structural Features:
COG1530, CafA, Ribonucleases G and E 
[Translation, ribosomal structure and biogenesis]
CD-Length = 487 residues,  99.2% aligned
Score =  508 bits (1310), Expect = 1e-144
Identities = 248/487 (50%), Positives = 327/487 (67%), Gaps = 7/487 (1%)








   
Genomic Context:






   
Comment:


















    ReferenceID:1849




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18991




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31515




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:923_cdd.html


    		




 
URL:

















    ReferenceID:32865




  
Author/Investigator(s):
        Umitsuki G, Wachi M, Takada A, Hikichi T, Nagai K.





  
Title:
        Involvement of RNase G in in vivo mRNA metabolism in Escherichia coli.




  
PubMed:
        11380618


MedLine:
        




    
Source:
Genes Cells. 2001 May;6(5):403-10.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11380618

















    ReferenceID:32866




  
Author/Investigator(s):
        Jiang X, Diwa A, Belasco JG.





  
Title:
        Regions of RNase E important for 5'-end-dependent RNA cleavage and autoregulated synthesis.




  
PubMed:
        10762247


MedLine:
        




    
Source:
J Bacteriol. 2000 May;182(9):2468-75.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10762247

















    ReferenceID:32867




  
Author/Investigator(s):
        Tock MR, Walsh AP, Carroll G, McDowall KJ.





  
Title:
        The CafA protein required for the 5'-maturation of 16 S rRNA is a 5'-end-dependent ribonuclease that has context-dependent broad sequence specificity.




  
PubMed:
        10722715


MedLine:
        




    
Source:
J Biol Chem. 2000 Mar 24;275(12):8726-32.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10722715

















    ReferenceID:32868




  
Author/Investigator(s):
        Wachi M, Umitsuki G, Shimizu M, Takada A, Nagai K.





  
Title:
        Escherichia coli cafA gene encodes a novel RNase, designated as RNase G, involved in processing of the 5' end of 16S rRNA.




  
PubMed:
        10362534


MedLine:
        




    
Source:
Biochem Biophys Res Commun. 1999 Jun 7;259(2):483-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10362534

















    ReferenceID:32869




  
Author/Investigator(s):
        Wachi M, Umitsuki G, Nagai K.





  
Title:
        Functional relationship between Escherichia coli RNase E and the CafA protein.




  
PubMed:
        9037114


MedLine:
        




    
Source:
Mol Gen Genet. 1997 Jan 27;253(4):515-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9037114

















    ReferenceID:32870




  
Author/Investigator(s):
        Okada Y, Shibata T, Matsuhashi M.





  
Title:
        Possible function of the cytoplasmic axial filaments in chromosomal segregation and cellular division of Escherichia coli.




  
PubMed:
        7725080


MedLine:
        




    
Source:
Sci Prog. 1993-94;77 ( Pt 3-4):253-64.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7725080









           
Homologs By Global Alignment 

           

       



     
Gene ID:923
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1635
                           PA4477_tr
                           translation of PA4477
                           485
                           99.99
                           99.99
                           0
                           2424.0
     

     
     
58826
                           gb|AAG07865.1|AE004861_6
                           (AE004861) cytoplasmic axial filament protein [Pseudomonas aeruginosa PAO1]
                           485
                           99.99
                           99.99
                           0
                           2424.0
     

     
     
58827
                           gb|AAN66562.1|AE016284_10
                           (AE016777) cytoplasmic axial filament protein [Pseudomonas putida KT2440]
                           485
                           88.45
                           94.02
                           0
                           2171.0
     

     
     
58828
                           gb|AAO57917.1|
                           (AE016872) ribonuclease G [Pseudomonas syringae pv. tomato str. DC3000]
                           485
                           88.04
                           93.60
                           0
                           2162.0
     

     
     
58844
                           gb|AAM41881.1|
                           (AE012373) ribonuclease G [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           502
                           59.76
                           76.29
                           20
                           1500.0
     

     






      

          
GC ORFID: 43925How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4477Glimmer Score: 

          
Start: 4437369Stop: 4435912

          
Length: 1458


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4477 translation of PA4477Homolog Bit Score 938.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5509 (ORF: BLASTX 838.0), t_PA4477 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGAAGAGATCCTGATCAATATCACGCCGATGGAGTCGCGCGTGGCGGTGGTGGAAAACGGCGTCCTG 
CAGGAAGTGCATGTCGAACGCACCCAGCGGCGCGGCATCGTCGGCAATATCTACAAGGGGCGGGTGGTACGG 
GTACTGCCGGGGATGCAGGCGGCGTTCGTCGACATCGGCCTGGAACGTGCGGCGTTCATCCATGCCGCCGAG 
ATATCCAATCGCGAAGGCAGCGCTGTGGAAAGCATCAGTGCCCTGGTCCATGAGGGGCAGGCGCTGGTGGTG 
CAGGTGACCAAGGATCCGATCGGCACCAAGGGCGCACGGCTGACCACCCACCTGTCGATTCCTTCGCGCTAT 
CTGGTGTACATGCCGCGCACCAGCCATGTCGGGATATCCCTGCGGATCGAGGACGAAGTCGAGCGCGAGCGC 
CTGAAGAAGGTGGTGGCCGACTGCGTGGCGGCGGAAGGCATCGAGGGGCAGGGCGGCTTCATTCTGCGCACC 
GCCGCGGAAGGTGCGGGCGAGGACGAGATTCTCGCCGACATCCGCTACCTTCGCCGGCTATGGGACCAGATC 
GCCGCGCAGATCCAGACCGTCGGCGCGCCTTCGGTGATCTACGAAGACCTGTCCCTGGCGATCCGTACCCTG 
CGCGACCTGGTGAACCCGCGGATCGAGAAGATCCGCATCGACTCGCGAGAGAACTTCCAGAAGATCACTTCC 
TTCGTCGAAGAATTGATGCCGGAGATTTCCGATCGCCTCGAACATTACCCGGGCGAGCGACCGATCTTCGAT 
CTCTACGGCGTCGAGGACGAAATCCAGAAAGCCCTGGAGCGCAAGGTACTGCTGAAGTCCGGCGGCTACCTG 
ATCGTCGATCCGACCGAGGCGATGACCACCATCGACGTGAACACCGGCGCCTTCGTCGGCCATCGCAACCTC 
GAGGAAACCATCTTCAAGACCAACCTCGAGGCGGCCACCGCGATCGCCCGCCAACTGCGCCTGCGCAACCTG 
GGCGGGATCATCATCATCGACTTCATCGACATGGAGGACGAGGAGCATCGCCGGCAGGTCCTGCGCACCCTG 
GAGAAGCAACTGGAGCGCGACCACGCGAAGACCAACATCATCGGCATCACCGAGTTGGGCCTGGTGCAGATG 
ACCCGCAAGCGCACCCGCGAAAGCCTGGTGCAGATCCTTTGCGAGCCGTGTCCCTGCTGTCAGGGACGCGGC 
ATGCTGAAGACTGCGGAAACCACCTGCTACGAGATTTTCCGCGAGATTCTCCGCGAGGCACGTGCCTACCAG 
GCCGACTCCTACCTGGTGCTGGCCAACCAGAAGGTGGTGGACCGGCTGCTCGACGAGGAGTCGGGTAACGTC 
GCCGATCTCGAGGCGTTCATCGGCCGCACCATCAAGTTCCAGGTCGAGGCGATGTACTCGCAGGAGCAATAT 
GACGTGGTCCTGCTCTGA