ViewGene
Locus Name:
GeneID:
Location:

GeneID:3495
TrivialName: PA14_18210
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_18210
PAO1 Ortholog Locus:PA3564
Sequence Length:678
Protein Length:225
Start: 1562289
Stop: 1561612
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06952.1|AE004777_5 (AE004777) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 223/225 (99%), Positives = 225/225 (100%)
Sequence:
GTGGTGCTCGGCGTCTACCGCGAGAACTGGCAACGGGTCTGGGACCTGGCGCAGGCCGAGGATGGCCTGTAC
GCGGCGCTCGGCCTGCACCCCGTCTACCTGGCGCGGCACCGCCCGCAGCACCTGGACGACCTGCGCCAGTGG
CTGCAACGCCTGCGCGGCGAGACGAAGCTCTGCGCGGTCGGCGAGATCGGCCTGGACTACTACCTGGAACAC
CTCGACCGCGACGCCCAGCAGGCGCTGTTCGAGGCCCAACTGCGGCTGGCCGCGGAATTCCGCCTGCCGGCG
CTGATCCACGTGCGCCGTGCCCACGCGGCGACCATCGCCACCCTCAAGCGCATCCGCCTGGAGCGCCGTGGC
ATCATCCATGCCTTCGCCGGCAGCCGCGAGGAAGCCCGCGAGTACCTCAAGCTCGGCTTCCGCCTCGGCCTC
GGCGGCGCGCCGACCTGGCCGCAGGCCAACCGCCTGCGCAAGGTGGCGGCGGAGCTGCCGGCCGACGCCATC
GTGCTGGAAACCGATGCGCCGGACATGGCGCCCTCGATGTATCCCGGCCAGCGCAACAGTCCGGAGCACCTG
CCGGACATCTGCCGCGCCCTCGCCGAGCTGCGCGGGGTCGACGCCGAGGAACTGGCGGCGAGCAGCAGCCGC
AACGCCGCCGAGCTGTTCGGCTGGGACTGA
Translation:
MVLGVYRENWQRVWDLAQAEDGLYAALGLHPVYLARHRPQHLDDLRQWLQRLRGETKLCAVGEIGLDYYLEH
LDRDAQQALFEAQLRLAAEFRLPALIHVRRAHAATIATLKRIRLERRGIIHAFAGSREEAREYLKLGFRLGL
GGAPTWPQANRLRKVAAELPADAIVLETDAPDMAPSMYPGQRNSPEHLPDICRALAELRGVDAEELAASSSR
NAAELFGWD*
AnnotationID:3503GeneID:3495
AnnotatorUID: diggins
Modification Date/Time: 2005-04-20 06:06:54
Gene Name:
Confidence Code:3
GeneProduct:putative deoxyribonuclease, TatD family
Cell Localization:()
Synonyms:PA3564
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0084,pfam01026,KOG3020
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66416.1|AE016269_3 (AE016777) deoxyribonuclease, TatD family [Pseudomonas putida
           KT2440]
          Length = 258

 Score =  319 bits (817), Expect = 9e-87
 Identities = 154/224 (68%), Positives = 183/224 (81%)

>gb|AAO54486.1| (AE016859) hydrolase, TatD family [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 232

 Score =  311 bits (797), Expect = 2e-84
 Identities = 142/224 (63%), Positives = 179/224 (79%)

>gb|AAO28039.1| (AE012553) deoxyribonuclease [Xylella fastidiosa Temecula1]
          Length = 260

 Score =  184 bits (467), Expect = 3e-46
 Identities = 96/223 (43%), Positives = 135/223 (60%), Gaps = 5/223 (2%)







 
Structural Features:
COG0084, TatD, Mg-dependent DNase 
[DNA replication, recombination, and repair]
CD-Length = 256 residues,  86.3% aligned
Score =  242 bits (618), Expect = 3e-65
Identities = 97/224 (43%), Positives = 142/224 (63%), Gaps = 4/224 (1%)

pfam01026, TatD_DNase, TatD related DNase.
CD-Length = 250 residues,  87.6% aligned
Score =  206 bits (526), Expect = 1e-54
Identities = 90/226 (39%), Positives = 131/226 (57%), Gaps = 9/226 (3%)

KOG3020, TatD-related DNase [Replication, recombination and repair]
CD-Length = 296 residues,  83.1% aligned
Score =  138 bits (350), Expect = 9e-34
Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 31/250 (12%)







   
Genomic Context:






   
Comment:


















    ReferenceID:14861




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24135




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31980




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3495_cdd.html


    		




 
URL:

















    ReferenceID:38100




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3495_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3495
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5573
                           PA3564_tr
                           translation of PA3564
                           225
                           99.11
                           99.99
                           0
                           1160.0
     

     
     
155448
                           gb|AAG06952.1|AE004777_5
                           (AE004777) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           225
                           98.66
                           99.99
                           0
                           1157.0
     

     
     
155450
                           gb|AAO54486.1|
                           (AE016859) hydrolase, TatD family [Pseudomonas syringae pv. tomato str. DC3000]
                           232
                           61.63
                           77.15
                           7
                           799.0
     

     
     
155449
                           gb|AAN66416.1|AE016269_3
                           (AE016777) deoxyribonuclease, TatD family [Pseudomonas putida KT2440]
                           259
                           59.84
                           70.65
                           35
                           820.0
     

     
     
155468
                           gb|AAA97274.1|
                           (U14003) ORF_o211 [Escherichia coli]
                           225
                           38.66
                           56.88
                           14
                           400.0
     

     






      

          
GC ORFID: 46497How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3564Glimmer Score: 

          
Start: 3391647Stop: 3392324

          
Length: 678


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3564 translation of PA3564Homolog Bit Score 451.0

          
Other Homologs:  psyr_15may02_Scaffold15_revised_gene2526 (ORF: BLASTX 355.0), t_PA3564 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGTGCTCGGCGTCTACCGCGAGAACTGGCAACGGGTCTGGGACCTGGCGCAGGCCGAGGATGGCCTGTAC 
GCGGCGCTCGGCCTGCACCCCGTCTACCTGGCGCGGCACCGCCCGCAGCACCTGGACGACCTGCGCCAGTGG 
CTGCAACGCCTGCGCGGCGAGACGAAGCTCTGCGCGGTCGGCGAGATCGGCCTGGACTACTACCTGGAACAC 
CTCGACCGCGACGCCCAGCAGGCGCTGTTCGAGGCCCAACTGCGGCTGGCCGCGGAATTCCGCCTGCCGGCG 
CTGATCCACGTGCGCCGTGCCCACGCGGCGACCATCGCCACCCTCAAGCGCATCCGCCTGGAGCGCCGTGGC 
ATCATCCATGCCTTCGCCGGCAGCCGCGAGGAAGCCCGCGAGTACCTCAAGCTCGGCTTCCGCCTCGGCCTC 
GGCGGCGCGCCGACCTGGCCGCAGGCCAACCGCCTGCGCAAGGTGGCGGCGGAGCTGCCGGCCGACGCCATC 
GTGCTGGAAACCGATGCGCCGGACATGGCGCCCTCGATGTATCCCGGCCAGCGCAACAGTCCGGAGCACCTG 
CCGGACATCTGCCGCGCCCTCGCCGAGCTGCGCGGGGTCGACGCCGAGGAACTGGCGGCGAGCAGCAGCCGC 
AACGCCGCCGAGCTGTTCGGCTGGGACTGA