ViewGene
Locus Name:
GeneID:
Location:

GeneID:5446
TrivialName: PA14_25630
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_25630
PAO1 Ortholog Locus:PA2970
Sequence Length:183
Protein Length:60
Start: 2240959
Stop: 2241141
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06358.1|AE004723_2 (AE004723) 50S ribosomal protein L32 [Pseudomonas aeruginosa PAO1]
Identities = 60/60 (100%), Positives = 60/60 (100%)
Sequence:
ATGGCTGTTCAGCAGAACAAAAAGTCTCGTTCCGCTCGTGACATGCGTCGTTCCCACGATGCGCTCGAGTCC
AATGCTCTGTCCGTGGAAAAGAGCACAGGTGAAGTCCACCTGCGCCACCACGTATCCCCGGACGGCTTCTAT
CGCGGCCGTAAGGTAGTAGACAAGGGCTCCGACGAGTAA
Translation:
MAVQQNKKSRSARDMRRSHDALESNALSVEKSTGEVHLRHHVSPDGFYRGRKVVDKGSDE*
AnnotationID:5451GeneID:5446
AnnotatorUID: diggins
Modification Date/Time: 2005-04-11 07:07:15
Gene Name:rpmF
Confidence Code:2
GeneProduct:50S ribosomal protein L32
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:COG0333,pfam01783
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67529.1|AE016381_6 (AE016781) ribosomal protein L32 [Pseudomonas putida KT2440]
          Length = 60

 Score =  112 bits (281), Expect = 4e-25
 Identities = 54/60 (90%), Positives = 57/60 (95%)

>gb|AAO57303.1| (AE016869) ribosomal protein L32 [Pseudomonas syringae pv. tomato
          str. DC3000]
          Length = 60

 Score =  110 bits (276), Expect = 1e-24
 Identities = 51/60 (85%), Positives = 58/60 (96%)

>gb|AAC21827.1| (U32701) ribosomal protein L32 (rpL32) [Haemophilus influenzae
          Rd]
          Length = 56

 Score = 92.0 bits (227), Expect = 7e-19
 Identities = 42/56 (75%), Positives = 51/56 (91%)








 
Structural Features:
COG0333, RpmF, Ribosomal protein L32 
[Translation, ribosomal structure and biogenesis]
CD-Length = 57 residues, 100.0% aligned
Score = 63.7 bits (155), Expect = 4e-12
Identities = 29/57 (50%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

pfam01783, Ribosomal_L32p, Ribosomal L32p protein family.
CD-Length = 56 residues, 100.0% aligned
Score = 51.1 bits (122), Expect = 3e-08
Identities = 22/56 (39%), Positives = 32/56 (57%), Gaps = 1/56 (1%)








   
Genomic Context:






   
Comment:


















    ReferenceID:10890




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28035




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36050




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5446_cdd.html


    		




 
URL:

















    ReferenceID:36444




  
Author/Investigator(s):
        Tanaka Y, Tsujimura A, Fujita N, Isono S, Isono K.





  
Title:
        Cloning and analysis of an Escherichia coli operon containing the rpmF gene for ribosomal protein L32 and the gene for a 30-kilodalton protein.




  
PubMed:
        2477362


MedLine:
        




    
Source:
J Bacteriol. 1989 Oct;171(10):5707-12.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2477362









           
Homologs By Global Alignment 

           

       



     
Gene ID:5446
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7841
                           PA2970_tr
                           translation of PA2970
                           60
                           99.99
                           99.99
                           0
                           307.0
     

     
     
196616
                           gb|AAG06358.1|AE004723_2
                           (AE004723) 50S ribosomal protein L32 [Pseudomonas aeruginosa PAO1]
                           60
                           99.99
                           99.99
                           0
                           307.0
     

     
     
196617
                           gb|AAN67529.1|AE016381_6
                           (AE016781) ribosomal protein L32 [Pseudomonas putida KT2440]
                           60
                           90.00
                           95.00
                           0
                           281.0
     

     
     
196618
                           gb|AAO57303.1|
                           (AE016869) ribosomal protein L32 [Pseudomonas syringae pv. tomato str. DC3000]
                           60
                           85.00
                           96.66
                           0
                           276.0
     

     






      

          
GC ORFID: 48448How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2970Glimmer Score: 

          
Start: 2712966Stop: 2712784

          
Length: 183


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2970 translation of PA2970Homolog Bit Score 122.0

          
Other Homologs:  psyr_15may02_Scaffold13_revised_gene2159 (ORF: BLASTX 110.0), t_PA2970 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTGTTCAGCAGAACAAAAAGTCTCGTTCCGCTCGTGACATGCGTCGTTCCCACGATGCGCTCGAGTCC 
AATGCTCTGTCCGTGGAAAAGAGCACAGGTGAAGTCCACCTGCGCCACCACGTATCCCCGGACGGCTTCTAT 
CGCGGCCGTAAGGTAGTAGACAAGGGCTCCGACGAGTAA