ViewGene
Locus Name:
GeneID:
Location:

GeneID:1860
TrivialName: PA14_17440
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_17440
PAO1 Ortholog Locus:PA3626
Sequence Length:1068
Protein Length:355
Start: 1495581
Stop: 1496648
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07014.1|AE004782_12 (AE004782) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 351/355 (98%), Positives = 352/355 (99%)
Sequence:
ATGAGCGTTCTCGGCGAACTCGACTTGCTCGGGCCGCGCGCCCATGGGGCAGCCTGCGGCGAGGCGGTGCTC
AAGGCCGTGGCCGAGGACTTCCAGGTCGACGAGGTGCTGGACATTCCCCTCAGCGGTGAAGGCGAGCACCTC
TGGTTGTGGGTGGAAAAGCGCGGATTGAACACCGAGGAGGCGGCCCGTCGCCTCGGCCGCGCCGCCGGCGTG
CAGCAGAAGAACGTCAGCTACGCCGGGTTGAAGGACCGCCAGGCCCTGACCCGGCAATGGTTCAGCCTGCAC
CTGCCGGGCAAGGCCGATCCCGACCTGGGCGCAGCCGAGGGCGCGGACCTGCGGATTCTTCGCCGCACCCGT
CATTCGCGCAAGTTGCAGCGAGGCGCGCATGCCGCCAACGGCTTCACCCTGCGTCTGACCGGGCTGCGGGCG
GAGCGTGCCCTTCTCGACGCGCGCTTGGAACGTATCGCCGCGGACGGCGTGCCCAACTATTTCGGCCTGCAA
CGCTTCGGCCACGGCGGCGGCAACCTGGTCGACGCGCGCAGTTGCGCGGAACAGGACCTGCTGCCGGCGAAC
CGCAACCTGCGTTCGCGCTTCCTTTCCGCCGGGCGCAGCTACCTGTTCAACCGCCTGCTCGCCGAGCGGGTC
GCGGAGGGTAGCTGGAACCGGGCAGCGGTTGGCGACCTGCTGGCCTTCACCGACAGCCGCAGCTTTTTCCTC
GCTGGCGAGGAAGAATGCCGCGATGCCCGTCTGGCCGCCCTCGACCTGCACCCCACCGGACCGCTCTGGGGC
GAGGGCGATCCGCCGAGCGGCGCCGGCGTCCTCGACCGCGAGCTGGCCCTGGCCGGGAGCGAGCCGGCGCTC
TGCCGCTGGCTGGCGAAGGCGGGCATGGCGCACGAACGGCGCATCCTGCGGCTCCCCATCCAGGGGCTGGCG
TGGCATTATCCCGAACCTGATGTTCTGCAACTGGAATTCGTCCTGCCGGCCGGTTGTTTCGCCACCGTAGTG
GTGCGTGAAATCCTCGACCTGGTACCGACAGGGCAGACGGAAAACCCATGCGCATACTGA
Translation:
MSVLGELDLLGPRAHGAACGEAVLKAVAEDFQVDEVLDIPLSGEGEHLWLWVEKRGLNTEEAARRLGRAAGV
QQKNVSYAGLKDRQALTRQWFSLHLPGKADPDLGAAEGADLRILRRTRHSRKLQRGAHAANGFTLRLTGLRA
ERALLDARLERIAADGVPNYFGLQRFGHGGGNLVDARSCAEQDLLPANRNLRSRFLSAGRSYLFNRLLAERV
AEGSWNRAAVGDLLAFTDSRSFFLAGEEECRDARLAALDLHPTGPLWGEGDPPSGAGVLDRELALAGSEPAL
CRWLAKAGMAHERRILRLPIQGLAWHYPEPDVLQLEFVLPAGCFATVVVREILDLVPTGQTENPCAY*
AnnotationID:1869GeneID:1860
AnnotatorUID: diggins
Modification Date/Time: 2005-06-20 20:08:43
Gene Name:
Confidence Code:3
GeneProduct:putative tRNA pseudouridine synthase D
Cell Localization:()
Synonyms:PA3626
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam01142
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAM36590.1| (AE011804) hydrogenase subunit [Xanthomonas axonopodis pv. citri
           str. 306]
          Length = 369

 Score =  266 bits (681), Expect = 1e-70
 Identities = 162/363 (44%), Positives = 210/363 (57%), Gaps = 21/363 (5%)







 
Structural Features:
pfam01142, TruD, tRNA pseudouridine synthase D (TruD). TruD is responsible for 
synthesis of pseudouridine from uracil-13 in transfer RNAs.
CD-Length = 393 residues, 100.0% aligned
Score =  326 bits (837), Expect = 5e-90
Identities = 153/395 (38%), Positives = 189/395 (47%), Gaps = 60/395 (15%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3723




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20870




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31916




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1860_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1860
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3263
                           PA3626_tr
                           translation of PA3626
                           355
                           98.87
                           99.15
                           0
                           1825.0
     

     
     
101057
                           gb|AAG07014.1|AE004782_12
                           (AE004782) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           355
                           98.87
                           99.15
                           0
                           1825.0
     

     
     
101058
                           gb|AAN67240.1|AE016351_2
                           (AE016780) conserved hypothetical protein [Pseudomonas putida KT2440]
                           355
                           72.95
                           81.97
                           3
                           1374.0
     

     
     
101059
                           gb|AAO55081.1|
                           (AE016861) conserved hypothetical protein TIGR00094 [Pseudomonas syringae pv. tomato str. DC3000]
                           355
                           69.85
                           78.87
                           3
                           1295.0
     

     
     
101061
                           gb|AAM40998.1|
                           (AE012272) hydrogenase subunit [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           378
                           44.17
                           57.67
                           34
                           690.0
     

     






      

          
GC ORFID: 44862How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3626Glimmer Score: 

          
Start: 3458356Stop: 3457289

          
Length: 1068


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3626 translation of PA3626Homolog Bit Score 707.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4647 (ORF: BLASTX 500.0), t_PA3626 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGTTCTCGGCGAACTCGACTTGCTCGGGCCGCGCGCCCATGGGGCAGCCTGCGGCGAGGCGGTGCTC 
AAGGCCGTGGCCGAGGACTTCCAGGTCGACGAGGTGCTGGACATTCCCCTCAGCGGTGAAGGCGAGCACCTC 
TGGTTGTGGGTGGAAAAGCGCGGATTGAACACCGAGGAGGCGGCCCGTCGCCTCGGCCGCGCCGCCGGCGTG 
CAGCAGAAGAACGTCAGCTACGCCGGGTTGAAGGACCGCCAGGCCCTGACCCGGCAATGGTTCAGCCTGCAC 
CTGCCGGGCAAGGCCGATCCCGACCTGGGCGCAGCCGAGGGCGCGGACCTGCGGATTCTTCGCCGCACCCGT 
CATTCGCGCAAGTTGCAGCGAGGCGCGCATGCCGCCAACGGCTTCACCCTGCGTCTGACCGGGCTGCGGGCG 
GAGCGTGCCCTTCTCGACGCGCGCTTGGAACGTATCGCCGCGGACGGCGTGCCCAACTATTTCGGCCTGCAA 
CGCTTCGGCCACGGCGGCGGCAACCTGGTCGACGCGCGCAGTTGCGCGGAACAGGACCTGCTGCCGGCGAAC 
CGCAACCTGCGTTCGCGCTTCCTTTCCGCCGGGCGCAGCTACCTGTTCAACCGCCTGCTCGCCGAGCGGGTC 
GCGGAGGGTAGCTGGAACCGGGCAGCGGTTGGCGACCTGCTGGCCTTCACCGACAGCCGCAGCTTTTTCCTC 
GCTGGCGAGGAAGAATGCCGCGATGCCCGTCTGGCCGCCCTCGACCTGCACCCCACCGGACCGCTCTGGGGC 
GAGGGCGATCCGCCGAGCGGCGCCGGCGTCCTCGACCGCGAGCTGGCCCTGGCCGGGAGCGAGCCGGCGCTC 
TGCCGCTGGCTGGCGAAGGCGGGCATGGCGCACGAACGGCGCATCCTGCGGCTCCCCATCCAGGGGCTGGCG 
TGGCATTATCCCGAACCTGATGTTCTGCAACTGGAATTCGTCCTGCCGGCCGGTTGTTTCGCCACCGTAGTG 
GTGCGTGAAATCCTCGACCTGGTACCGACAGGGCAGACGGAAAACCCATGCGCATACTGA