ViewGene
Locus Name:
GeneID:
Location:

GeneID:4358
TrivialName: PA14_63060
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_63060
PAO1 Ortholog Locus:PA4768
Sequence Length:480
Protein Length:159
Start: 5625711
Stop: 5626190
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08154.1|AE004890_7 (AE004890) SmpB protein [Pseudomonas aeruginosa PAO1]
Identities = 159/159 (100%), Positives = 159/159 (100%)
Sequence:
ATGGCTAAGCAGAAGAAACACCCTTCGGGGACCATCGCGCAGAACAAGAAGGCTCTGCACGACTATTTCATC
GAACAACGCTTCGAGGCGGGCGTCGCCCTGGCGGGCTGGGAAGTGAAAAGCCTGCGCGCCGGCAAGGCCCAA
CTGGTCGACAGCTACGTGCTGCTCAAGGATGGCGAGGCCTGGCTGCTCGGCAGCCACATCACGCCCCTGACC
ACCGCCAGCACGCACGTGATCGCCGACCCGGTGCGCACGCGCAAGCTGCTGCTGCACAAGCGCGAACTGGGC
AAGCTGTTCGGCGCCGTGCAACAGAAGGGCTACGCCTGCGTCGCCCTGTCGATGTACTGGAAGAAGCACCTG
GTCAAGTGCGAGATCGCCCTGGCCAAGGGCAAGAAGGACTTCGACAAGCGCCACACCGAGAAGGAGCGCGAC
TCCGATCGGGAGATCCAGCGCGCCATGCGCCACGGCAAGGACGACTGA
Translation:
MAKQKKHPSGTIAQNKKALHDYFIEQRFEAGVALAGWEVKSLRAGKAQLVDSYVLLKDGEAWLLGSHITPLT
TASTHVIADPVRTRKLLLHKRELGKLFGAVQQKGYACVALSMYWKKHLVKCEIALAKGKKDFDKRHTEKERD
SDREIQRAMRHGKDD*
AnnotationID:4364GeneID:4358
AnnotatorUID: diggins
Modification Date/Time: 2005-03-09 11:11:43
Gene Name:smpB
Confidence Code:2
GeneProduct:ssrA(tmRNA)-binding protein (small protein B)
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:COG0691,pfam01668
Secondary Functional Category(ies):posttranslational modification, protein turnover, chaperones
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN03803.1|AF490983_3 (AF490983) small protein B [Azotobacter vinelandii]
          Length = 160

 Score =  288 bits (738), Expect = 6e-78
 Identities = 140/160 (87%), Positives = 152/160 (95%), Gaps = 1/160 (0%)

>gb|AAO57963.1| (AE016872) SsrA-binding protein [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 160

 Score =  266 bits (680), Expect = 3e-71
 Identities = 129/160 (80%), Positives = 145/160 (90%), Gaps = 1/160 (0%)

>emb|CAC89944.1| (AJ414146) SsrA-binding protein (small protein B) [Yersinia pestis
           CO92]
          Length = 160

 Score =  188 bits (478), Expect = 9e-48
 Identities = 95/157 (60%), Positives = 119/157 (75%), Gaps = 2/157 (1%)








 
Structural Features:
COG0691, SmpB, tmRNA-binding protein 
[Posttranslational modification, protein turnover, chaperones]
CD-Length = 153 residues,  99.3% aligned
Score =  208 bits (532), Expect = 2e-55
Identities = 94/153 (61%), Positives = 108/153 (70%), Gaps = 1/153 (0%)

pfam01668, SmpB, SmpB protein.
CD-Length = 68 residues,  98.5% aligned
Score =  102 bits (257), Expect = 2e-23
Identities = 41/67 (61%), Positives = 48/67 (71%)







   
Genomic Context:






   
Comment:


















    ReferenceID:8717




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25860




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37677




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4358_cdd.html


    		




 
URL:

















    ReferenceID:37711




  
Author/Investigator(s):
        Karzai AW, Susskind MM, Sauer RT.





  
Title:
        SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA).




  
PubMed:
        10393194


MedLine:
        




    
Source:
EMBO J. 1999 Jul 1;18(13):3793-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=99321766&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:4358
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6692
                           PA4768_tr
                           translation of PA4768
                           159
                           99.99
                           99.99
                           0
                           829.0
     

     
     
179829
                           gb|AAG08154.1|AE004890_7
                           (AE004890) SmpB protein [Pseudomonas aeruginosa PAO1]
                           159
                           99.99
                           99.99
                           0
                           829.0
     

     
     
179830
                           gb|AAN03803.1|AF490983_3
                           (AF490983) small protein B [Azotobacter vinelandii]
                           160
                           87.50
                           95.00
                           1
                           740.0
     

     
     
179831
                           gb|AAO57963.1|
                           (AE016872) SsrA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           160
                           80.62
                           90.62
                           1
                           682.0
     

     
     
179832
                           gb|AAN70305.1|AE016671_6
                           (AE016791) SsrA-binding protein [Pseudomonas putida KT2440]
                           160
                           78.12
                           89.37
                           1
                           664.0
     

     






      

          
GC ORFID: 47360How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4768Glimmer Score: 

          
Start: 4889391Stop: 4889870

          
Length: 480


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4768 translation of PA4768Homolog Bit Score 323.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5590 (ORF: BLASTX 268.0), t_PA4768 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTAAGCAGAAGAAACACCCTTCGGGGACCATCGCGCAGAACAAGAAGGCTCTGCACGACTATTTCATC 
GAACAACGCTTCGAGGCGGGCGTCGCCCTGGCGGGCTGGGAAGTGAAAAGCCTGCGCGCCGGCAAGGCCCAA 
CTGGTCGACAGCTACGTGCTGCTCAAGGATGGCGAGGCCTGGCTGCTCGGCAGCCACATCACGCCCCTGACC 
ACCGCCAGCACGCACGTGATCGCCGACCCGGTGCGCACGCGCAAGCTGCTGCTGCACAAGCGCGAACTGGGC 
AAGCTGTTCGGCGCCGTGCAACAGAAGGGCTACGCCTGCGTCGCCCTGTCGATGTACTGGAAGAAGCACCTG 
GTCAAGTGCGAGATCGCCCTGGCCAAGGGCAAGAAGGACTTCGACAAGCGCCACACCGAGAAGGAGCGCGAC 
TCCGATCGGGAGATCCAGCGCGCCATGCGCCACGGCAAGGACGACTGA