ViewGene
Locus Name:
GeneID:
Location:

GeneID:2279
TrivialName: PA14_25580
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_25580
PAO1 Ortholog Locus:PA2975
Sequence Length:957
Protein Length:318
Start: 2237024
Stop: 2237980
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06363.1|AE004723_7 (AE004723) ribosomal large subunit pseudouridine synthase C [Pseudomonas aeruginosa PAO1]
Identities = 318/318 (100%), Positives = 318/318 (100%)
Sequence:
ATGACTACTCCCGCCTCTCCGACCACCGGTGTCCAGCTGCTCGATGTGCCGCCGGAACTGGCTGGTCAACGT
ATCGACAATTTCCTTATCGCCCGTCTCAAGGGTGCGCCCAAGACCCTGATCTATCGCATCCTGCGTAAGGGC
GAAGTGCGCGTGAACAAGGGGCGGATCAAGCCCGACTATCGGCTCCAGGCCGGAGACCAGGTGCGCGTGCCG
CCGCTGCGCCTGGCCGAGCGTGATGAGCCGGCGCCGCTGGCGCAGGGGCTGCTGGAGCGGATGGAGGCGGCG
ATCGTCTACGAGGACAAGGCGCTGATCGTGGTCAACAAGCCCGCCGGGATCGCCGTGCATGGCGGCAGCGGC
GTGAGCGCCGGGGTCATCGAGGTGTTTCGTCAGTTGCGCCCCGATGCCAAGGATATCGAATTGGTGCATCGT
CTCGATCGCGATACCTCCGGCCTGCTGATGATCGCCAAGAAGCGCAGCATGTTGCGTCACCTGCATGAGGCC
CTGCGGGGCGAGAAGATCGTCGACAAGCGCTATCACGCCCTGGTCCGTGGCCACTGGCCGGCTGGCAAGAAG
AACGTGCGCGCGCCGCTGCTGAAGAACAACCTGCGTTCGGGCGAGCGAATGGTAGAGGTGAACGTCGAGGGC
AAGGACGCGCTGACCGAGTTCCGGGTGCTGCGTCGCTTCGGCGATTTCGCCACCCTGGTGGAAGCACGCCCG
ATCACCGGGCGGACCCACCAGATCCGCGTGCATGCCAAGCACGCCGGGCATGCCATCGCCGGCGACCCGAAG
TATGGCGACGAGGATTTCTCCCGCGAGATCCGCGAGTTGGGCGGCAAGCGCCTGTTCCTGCATGCCGCGCAG
TTGCGCGTGCCGCTGCCCGACGGGCAGGTGCTGGAGCTGGAGGCGCCGGTGGACGAGATGTGGCAGCGTTCG
CTGGAGCGTTTGAATGACTGA
Translation:
MTTPASPTTGVQLLDVPPELAGQRIDNFLIARLKGAPKTLIYRILRKGEVRVNKGRIKPDYRLQAGDQVRVP
PLRLAERDEPAPLAQGLLERMEAAIVYEDKALIVVNKPAGIAVHGGSGVSAGVIEVFRQLRPDAKDIELVHR
LDRDTSGLLMIAKKRSMLRHLHEALRGEKIVDKRYHALVRGHWPAGKKNVRAPLLKNNLRSGERMVEVNVEG
KDALTEFRVLRRFGDFATLVEARPITGRTHQIRVHAKHAGHAIAGDPKYGDEDFSREIRELGGKRLFLHAAQ
LRVPLPDGQVLELEAPVDEMWQRSLERLND*
AnnotationID:2287GeneID:2279
AnnotatorUID: diggins
Modification Date/Time: 2005-04-11 12:12:42
Gene Name:rluC
Confidence Code:2
GeneProduct:ribosomal large subunit pseudouridine synthase C
Cell Localization:()
Synonyms:yceC
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:23S rRNA pseudouridylate synthase
Functional Category Confidence Code:5
COGs:COG0564,pfam00849
Secondary Functional Category(ies):
EC Number:4.2.1.70
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAK03076.1| (AE006138) RluC [Pasteurella multocida]
          Length = 326

 Score =  343 bits (879), Expect = 1e-93
 Identities = 181/311 (58%), Positives = 237/311 (76%), Gaps = 6/311 (1%)

>gb|AAN79826.1|AE016759_100 (AE016759) Ribosomal large subunit pseudouridine synthase C
           [Escherichia coli CFT073]
          Length = 319

 Score =  338 bits (868), Expect = 2e-92
 Identities = 182/317 (57%), Positives = 239/317 (75%), Gaps = 10/317 (3%)

>gb|AAO69356.1| (AE016839) ribosomal large subunit pseudouridine synthase C
           [Salmonella enterica subsp. enterica serovar Typhi Ty2]
          Length = 319

 Score =  335 bits (860), Expect = 2e-91
 Identities = 181/315 (57%), Positives = 236/315 (74%), Gaps = 10/315 (3%)








 
Structural Features:
COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific
[Translation, ribosomal structure and biogenesis]
CD-Length = 289 residues,  98.3% aligned
Score =  271 bits (694), Expect = 8e-74
Identities = 132/295 (44%), Positives = 174/295 (58%), Gaps = 14/295 (4%)

pfam00849, PseudoU_synth_2, RNA pseudouridylate synthase. 
CD-Length = 151 residues,  99.3% aligned
Score =  135 bits (341), Expect = 8e-33
Identities = 66/152 (43%), Positives = 85/152 (55%), Gaps = 3/152 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4561




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21707




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36077




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2279_cdd.html


    		




 
URL:

















    ReferenceID:36446




  
Author/Investigator(s):
        Conrad J, Sun D, Englund N, Ofengand J.





  
Title:
        The rluC gene of Escherichia coli codes for a pseudouridine synthase that is solely responsible for synthesis of pseudouridine at positions 955, 2504, and 2580 in 23 S ribosomal RNA.




  
PubMed:
        9660827


MedLine:
        




    
Source:
J Biol Chem. 1998 Jul 17;273(29):18562-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9660827









           
Homologs By Global Alignment 

           

       



     
Gene ID:2279
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3877
                           PA2975_tr
                           translation of PA2975
                           318
                           99.99
                           99.99
                           0
                           1625.0
     

     
     
118463
                           gb|AAG06363.1|AE004723_7
                           (AE004723) ribosomal large subunit pseudouridine synthase C [Pseudomonas aeruginosa PAO1]
                           318
                           99.99
                           99.99
                           0
                           1625.0
     

     
     
118469
                           gb|AAN79826.1|AE016759_100
                           (AE016759) Ribosomal large subunit pseudouridine synthase C [Escherichia coli CFT073]
                           326
                           55.82
                           73.61
                           15
                           879.0
     

     
     
118468
                           dbj|BAA35894.1|
                           (D90744) Hypothetical 36.0 kd protein in rne-rpmF intergenic region (orfx). [Escherichia coli K12]
                           326
                           55.82
                           73.61
                           15
                           880.0
     

     
     
118467
                           gb|AAC74170.1|
                           (AE000209) orf, hypothetical protein [Escherichia coli K12]
                           326
                           55.82
                           73.61
                           15
                           880.0
     

     






      

          
GC ORFID: 45281How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2975Glimmer Score: 

          
Start: 2716901Stop: 2715945

          
Length: 957


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2975 translation of PA2975Homolog Bit Score 630.0

          
Other Homologs:  psyr_15may02_Scaffold13_revised_gene2155 (ORF: BLASTX 503.0), t_PA2975 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACTACTCCCGCCTCTCCGACCACCGGTGTCCAGCTGCTCGATGTGCCGCCGGAACTGGCTGGTCAACGT 
ATCGACAATTTCCTTATCGCCCGTCTCAAGGGTGCGCCCAAGACCCTGATCTATCGCATCCTGCGTAAGGGC 
GAAGTGCGCGTGAACAAGGGGCGGATCAAGCCCGACTATCGGCTCCAGGCCGGAGACCAGGTGCGCGTGCCG 
CCGCTGCGCCTGGCCGAGCGTGATGAGCCGGCGCCGCTGGCGCAGGGGCTGCTGGAGCGGATGGAGGCGGCG 
ATCGTCTACGAGGACAAGGCGCTGATCGTGGTCAACAAGCCCGCCGGGATCGCCGTGCATGGCGGCAGCGGC 
GTGAGCGCCGGGGTCATCGAGGTGTTTCGTCAGTTGCGCCCCGATGCCAAGGATATCGAATTGGTGCATCGT 
CTCGATCGCGATACCTCCGGCCTGCTGATGATCGCCAAGAAGCGCAGCATGTTGCGTCACCTGCATGAGGCC 
CTGCGGGGCGAGAAGATCGTCGACAAGCGCTATCACGCCCTGGTCCGTGGCCACTGGCCGGCTGGCAAGAAG 
AACGTGCGCGCGCCGCTGCTGAAGAACAACCTGCGTTCGGGCGAGCGAATGGTAGAGGTGAACGTCGAGGGC 
AAGGACGCGCTGACCGAGTTCCGGGTGCTGCGTCGCTTCGGCGATTTCGCCACCCTGGTGGAAGCACGCCCG 
ATCACCGGGCGGACCCACCAGATCCGCGTGCATGCCAAGCACGCCGGGCATGCCATCGCCGGCGACCCGAAG 
TATGGCGACGAGGATTTCTCCCGCGAGATCCGCGAGTTGGGCGGCAAGCGCCTGTTCCTGCATGCCGCGCAG 
TTGCGCGTGCCGCTGCCCGACGGGCAGGTGCTGGAGCTGGAGGCGCCGGTGGACGAGATGTGGCAGCGTTCG 
CTGGAGCGTTTGAATGACTGA