ViewGene
Locus Name:
GeneID:
Location:

GeneID:2436
TrivialName: PA14_62730
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_62730
PAO1 Ortholog Locus:PA4742
Sequence Length:915
Protein Length:304
Start: 5598861
Stop: 5597947
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08128.1|AE004888_3 (AE004888) tRNA pseudouridine 55 synthase [Pseudomonas aeruginosa PAO1]
Identities = 303/304 (99%), Positives = 303/304 (99%)
Sequence:
GTGGCCCAGGTGAAGCGTATCCGCCGCTCCATCAGCGGCATCCTGGTGCTCGACAAGCCTCGCGGCATGAGT
TCCAACCAGGCACTGCAGAAAGTCCGCTGGCTGCTCAATGCCGAGAAGGCCGGCCACACCGGCAGCCTCGAC
CCGCTGGCCACCGGGGTGCTGCCGCTGTGCTTCGGCGAGGCGACCAAGTTCTCCCAGTATCTTCTCGATGCC
GACAAGGGTTACGAGACGGTGATGCGCATGGGCATCACCACCACCACCGGCGACGCCGAGGGCGAACTGCTC
GCCGAGCGGGACGTGACCGTCGGTCGGGACGATCTCGAACAGGCCCTGCCGCGCTTCCGTGGCGACATAGAG
CAGGTGCCGCCGATGTACTCGGCGCTGAAGAAAGACGGACAGCCGCTGTACAAGCTCGCCCGTGCAGGAGAG
GTAGTGGAGCGCGAGGCGCGTTCTGTTACTATTACGCGCCTGGATTTGCTCTCCTTCGAGCCGCCCTGTGCG
ACCCTGGCCGTTTCCTGCAGCAAAGGCACCTACGTGCGTACGCTGGTGGAAGATCTTGGCCAGGTCCTGGGC
TGCGGCGCGCACGTCGCGGCACTGCGGCGGACCCAGGCCGGGCCGTTCGCCCTGGCCCAGGCGATCACCCTC
GAGACGCTCGAACGCGTGCATGCCGAAGGTGGTCCGGAAGCGCTGGACCAATTCCTGATGCCGGAAGACAGC
GGCCTGTTGCATTGGCCGGTGTTGCAGTTGTCCGAGCACAGTGCGTACTACTGGCTGCACGGGCAGCCGGTG
CGGGCCCCGGAAGCGCCGAAGTTCGGCTGGTTGCGGGTGCAGGATCAGACAGGTCGTTTCATCGGTATCGGT
GAAGTGACCGACGACGGGCGTATCGCCCCGCGTCGACTGATTCGGTCATAA
Translation:
MAQVKRIRRSISGILVLDKPRGMSSNQALQKVRWLLNAEKAGHTGSLDPLATGVLPLCFGEATKFSQYLLDA
DKGYETVMRMGITTTTGDAEGELLAERDVTVGRDDLEQALPRFRGDIEQVPPMYSALKKDGQPLYKLARAGE
VVEREARSVTITRLDLLSFEPPCATLAVSCSKGTYVRTLVEDLGQVLGCGAHVAALRRTQAGPFALAQAITL
ETLERVHAEGGPEALDQFLMPEDSGLLHWPVLQLSEHSAYYWLHGQPVRAPEAPKFGWLRVQDQTGRFIGIG
EVTDDGRIAPRRLIRS*
AnnotationID:2444GeneID:2436
AnnotatorUID: diggins
Modification Date/Time: 2005-04-27 06:06:41
Gene Name:truB
Confidence Code:2
GeneProduct:tRNA pseudouridine 55 synthase
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:COG0130,pfam01509
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:5.4.99.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAP18488.1| (AE016989) tRNA pseudouridine 5S synthase [Shigella flexneri 2a
           str. 2457T]
          Length = 314

 Score =  301 bits (772), Expect = 2e-81
 Identities = 156/309 (50%), Positives = 209/309 (67%), Gaps = 7/309 (2%)

>gb|AAN82363.1|AE016767_123 (AE016767) tRNA pseudouridine synthase B [Escherichia coli CFT073]
          Length = 314

 Score =  301 bits (772), Expect = 2e-81
 Identities = 156/309 (50%), Positives = 209/309 (67%), Gaps = 7/309 (2%)

>gb|AAN44674.1|AE015332_4 (AE015332) tRNA pseudouridine 5S synthase [Shigella flexneri 2a
           str. 301]
          Length = 314

 Score =  301 bits (772), Expect = 2e-81
 Identities = 156/309 (50%), Positives = 209/309 (67%), Gaps = 7/309 (2%)






 
Structural Features:
COG0130, TruB, Pseudouridine synthase 
[Translation, ribosomal structure and biogenesis]
CD-Length = 271 residues,  96.7% aligned
Score =  282 bits (722), Expect = 5e-77
Identities = 121/298 (40%), Positives = 169/298 (56%), Gaps = 36/298 (12%)

pfam01509, TruB_N, TruB family pseudouridylate synthase (N terminal domain).
CD-Length = 156 residues, 100.0% aligned
Score =  178 bits (453), Expect = 7e-46
Identities = 79/156 (50%), Positives = 101/156 (64%), Gaps = 5/156 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14589




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22021




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37657




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2436_cdd.html


    		




 
URL:

















    ReferenceID:37730




  
Author/Investigator(s):
        Nurse K, Wrzesinski J, Bakin A, Lane BG, Ofengand J.





  
Title:
        Purification, cloning, and properties of the tRNA psi 55 synthase from Escherichia coli.




  
PubMed:
        7489483


MedLine:
        




    
Source:
RNA. 1995 Mar;1(1):102-12.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7489483









           
Homologs By Global Alignment 

           

       



     
Gene ID:2436
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4091
                           PA4742_tr
                           translation of PA4742
                           304
                           99.67
                           99.67
                           0
                           1561.0
     

     
     
122510
                           gb|AAG08128.1|AE004888_3
                           (AE004888) tRNA pseudouridine 55 synthase [Pseudomonas aeruginosa PAO1]
                           304
                           99.34
                           99.67
                           0
                           1558.0
     

     
     
122511
                           gb|AAQ59139.1|
                           (AE016915) tRNA pseudouridine 55 synthase [Chromobacterium violaceum ATCC 12472]
                           310
                           54.19
                           69.35
                           10
                           827.0
     

     
     
122529
                           emb|CAD14993.1|
                           (AL646063) PROBABLE TRNA PSEUDOURIDINE SYNTHASE B PROTEIN [Ralstonia solanacearum]
                           321
                           51.09
                           64.17
                           24
                           729.0
     

     
     
122513
                           gb|AAN82363.1|AE016767_123
                           (AE016767) tRNA pseudouridine synthase B [Escherichia coli CFT073]
                           314
                           50.00
                           67.19
                           10
                           773.0
     

     






      

          
GC ORFID: 45438How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4742Glimmer Score: 

          
Start: 4862541Stop: 4861627

          
Length: 915


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4742 translation of PA4742Homolog Bit Score 605.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5495 (ORF: BLASTX 486.0), t_PA4742 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGCCCAGGTGAAGCGTATCCGCCGCTCCATCAGCGGCATCCTGGTGCTCGACAAGCCTCGCGGCATGAGT 
TCCAACCAGGCACTGCAGAAAGTCCGCTGGCTGCTCAATGCCGAGAAGGCCGGCCACACCGGCAGCCTCGAC 
CCGCTGGCCACCGGGGTGCTGCCGCTGTGCTTCGGCGAGGCGACCAAGTTCTCCCAGTATCTTCTCGATGCC 
GACAAGGGTTACGAGACGGTGATGCGCATGGGCATCACCACCACCACCGGCGACGCCGAGGGCGAACTGCTC 
GCCGAGCGGGACGTGACCGTCGGTCGGGACGATCTCGAACAGGCCCTGCCGCGCTTCCGTGGCGACATAGAG 
CAGGTGCCGCCGATGTACTCGGCGCTGAAGAAAGACGGACAGCCGCTGTACAAGCTCGCCCGTGCAGGAGAG 
GTAGTGGAGCGCGAGGCGCGTTCTGTTACTATTACGCGCCTGGATTTGCTCTCCTTCGAGCCGCCCTGTGCG 
ACCCTGGCCGTTTCCTGCAGCAAAGGCACCTACGTGCGTACGCTGGTGGAAGATCTTGGCCAGGTCCTGGGC 
TGCGGCGCGCACGTCGCGGCACTGCGGCGGACCCAGGCCGGGCCGTTCGCCCTGGCCCAGGCGATCACCCTC 
GAGACGCTCGAACGCGTGCATGCCGAAGGTGGTCCGGAAGCGCTGGACCAATTCCTGATGCCGGAAGACAGC 
GGCCTGTTGCATTGGCCGGTGTTGCAGTTGTCCGAGCACAGTGCGTACTACTGGCTGCACGGGCAGCCGGTG 
CGGGCCCCGGAAGCGCCGAAGTTCGGCTGGTTGCGGGTGCAGGATCAGACAGGTCGTTTCATCGGTATCGGT 
GAAGTGACCGACGACGGGCGTATCGCCCCGCGTCGACTGATTCGGTCATAA