ViewGene
Locus Name:
GeneID:
Location:

GeneID:1477
TrivialName: PA14_14040
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_14040
PAO1 Ortholog Locus:PA3861
Sequence Length:1194
Protein Length:397
Start: 1204203
Stop: 1203010
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07248.1|AE004803_4 (AE004803) ATP-dependent RNA helicase RhlB [Pseudomonas aeruginosa PAO1]
Identities = 397/397 (100%), Positives = 397/397 (100%)
Sequence:
GTGGTCGAACCGCAGGAAGGCAAGACCCGCTTCCACGACTTCAACCTCGCCCCGAGCCTGATGCACGCCATC
CATGACCTCGGCTTCCCCTACTGCACGCCGATCCAGGCGCAGGTACTGGGCTTCACCCTGCGCGGCCAGGAC
GCCATCGGCCGCGCCCAGACCGGTACCGGCAAGACCGCCGCGTTCCTCATCTCGATCATCACCCAGTTGCTG
CAGACCCCGCCGCCGAAAGAGCGCTACATGGGCGAGCCGCGCGCGCTGATCATCGCCCCGACCCGCGAACTG
GTGGTACAGATCGCCAAGGACGCCGCGGCGCTGACCAAGTACACCGGGCTGAACGTGATGACCTTCGTCGGC
GGCATGGACTTCGACAAGCAACTCAAGCAGCTGGAAGCGCGCTTCTGCGACATCCTGGTAGCCACCCCCGGC
CGTCTGCTGGACTTCAACCAGCGCGGCGAGGTGCACCTGGACATGGTCGAGGTGATGGTCCTCGACGAAGCC
GACCGCATGCTCGACATGGGCTTTATCCCGCAGGTCCGGCAGATCATCCGGCAGACCCCGCACAAGGGCGAA
CGCCAGACCCTGCTGTTCTCGGCGACCTTCACCGACGACGTGATGAACCTCGCCAAGCAGTGGACCGTCGAT
CCGGCGATCGTCGAGATCGAGCCGGAGAACGTCGCCAGCGATACCGTCGAGCAGCATGTCTACGCCGTGGCC
GGCAGCGACAAGTACAAGCTGCTGTACAACCTGGTGGCGCAGAACAACTGGGAACGGGTGATGGTCTTCGCC
AACCGCAAGGACGAAGTCCGCCGCATCGAGGAACGCCTGACCAAGGACGGCATCAGCGCCGCCCAGATGTCC
GGCGACGTGCCGCAGCACAAGCGCATCCGCACCCTGGAAGGCTTCCGCGAAGGCAAGATCCGCGTCCTGGTG
GCAACCGACGTGGCCGGCCGCGGCATCCACATCGACGGCATCAGCCATGTGATCAACTTCACCCTGCCGGAA
GACCCGGACGACTACGTGCACCGTATCGGTCGTACCGGCCGCGCCGGCGCCTCGGGTACCTCGATCAGCTTC
GCTGGCGAGGACGATGCCTTCGCCCTGCCGCCGATCGAAGAACTGCTGGGCCGCAAGATCACCTGCGAGATG
CCGCCGGCCGAACTGCTCAAGCCGGTACCGCGCAAGCACTGA
Translation:
MVEPQEGKTRFHDFNLAPSLMHAIHDLGFPYCTPIQAQVLGFTLRGQDAIGRAQTGTGKTAAFLISIITQLL
QTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPG
RLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPHKGERQTLLFSATFTDDVMNLAKQWTVD
PAIVEIEPENVASDTVEQHVYAVAGSDKYKLLYNLVAQNNWERVMVFANRKDEVRRIEERLTKDGISAAQMS
GDVPQHKRIRTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGTSISF
AGEDDAFALPPIEELLGRKITCEMPPAELLKPVPRKH*
AnnotationID:1486GeneID:1477
AnnotatorUID: danlee
Modification Date/Time: 2006-01-27 16:04:03
Gene Name:rhl
Confidence Code:3
GeneProduct:ATP-dependent RNA helicase RhlB
Cell Localization:()
Synonyms:rhlB
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:KOG0331,KOG0330,cd00268
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66919.1|AE016320_7 (AE016778) ATP-dependent RNA helicase RhlB [Pseudomonas putida
           KT2440]
          Length = 398

 Score =  728 bits (1879), Expect = 0.0
 Identities = 363/397 (91%), Positives = 376/397 (94%)

>gb|AAN83132.1|AE016769_247 (AE016769) Putative ATP-dependent RNA helicase rhlB [Escherichia
           coli CFT073]
          Length = 421

 Score =  320 bits (821), Expect = 7e-87
 Identities = 174/387 (44%), Positives = 240/387 (62%), Gaps = 2/387 (0%)








 
Structural Features:
KOG0331, ATP-dependent RNA helicase [RNA processing and modification]
CD-Length = 519 residues,  71.5% aligned
Score =  333 bits (856), Expect = 3e-92
Identities = 148/374 (39%), Positives = 212/374 (56%), Gaps = 8/374 (2%)

KOG0330, ATP-dependent RNA helicase [RNA processing and modification]
CD-Length = 476 residues,  77.9% aligned
Score =  282 bits (722), Expect = 1e-76
Identities = 146/382 (38%), Positives = 205/382 (53%), Gaps = 13/382 (3%)

cd00268, DEADc, DEAD-box helicases. 
CD-Length = 203 residues, 100.0% aligned
Score =  243 bits (623), Expect = 5e-65
Identities = 102/211 (48%), Positives = 141/211 (66%), Gaps = 8/211 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14361




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20102




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31702




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1477_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1477
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2653
                           PA3861_tr
                           translation of PA3861
                           397
                           99.99
                           99.99
                           0
                           2047.0
     

     
     
83764
                           gb|AAG07248.1|AE004803_4
                           (AE004803) ATP-dependent RNA helicase RhlB [Pseudomonas aeruginosa PAO1]
                           397
                           99.74
                           99.99
                           0
                           2044.0
     

     
     
83765
                           gb|AAN66919.1|AE016320_7
                           (AE016778) ATP-dependent RNA helicase RhlB [Pseudomonas putida KT2440]
                           398
                           90.95
                           94.47
                           1
                           1875.0
     

     
     
83766
                           gb|AAO54778.1|
                           (AE016860) ATP-dependent RNA helicase RhlB [Pseudomonas syringae pv. tomato str. DC3000]
                           398
                           87.93
                           92.21
                           2
                           1813.0
     

     
     
83783
                           gb|AAK04005.1|
                           (AE006229) RhlB [Pasteurella multocida]
                           428
                           42.28
                           56.07
                           36
                           814.0
     

     






      

          
GC ORFID: 44479How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3861Glimmer Score: 

          
Start: 3749735Stop: 3750928

          
Length: 1194


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3861 translation of PA3861Homolog Bit Score 793.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4987 (ORF: BLASTX 764.0), t_PA3861 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGTCGAACCGCAGGAAGGCAAGACCCGCTTCCACGACTTCAACCTCGCCCCGAGCCTGATGCACGCCATC 
CATGACCTCGGCTTCCCCTACTGCACGCCGATCCAGGCGCAGGTACTGGGCTTCACCCTGCGCGGCCAGGAC 
GCCATCGGCCGCGCCCAGACCGGTACCGGCAAGACCGCCGCGTTCCTCATCTCGATCATCACCCAGTTGCTG 
CAGACCCCGCCGCCGAAAGAGCGCTACATGGGCGAGCCGCGCGCGCTGATCATCGCCCCGACCCGCGAACTG 
GTGGTACAGATCGCCAAGGACGCCGCGGCGCTGACCAAGTACACCGGGCTGAACGTGATGACCTTCGTCGGC 
GGCATGGACTTCGACAAGCAACTCAAGCAGCTGGAAGCGCGCTTCTGCGACATCCTGGTAGCCACCCCCGGC 
CGTCTGCTGGACTTCAACCAGCGCGGCGAGGTGCACCTGGACATGGTCGAGGTGATGGTCCTCGACGAAGCC 
GACCGCATGCTCGACATGGGCTTTATCCCGCAGGTCCGGCAGATCATCCGGCAGACCCCGCACAAGGGCGAA 
CGCCAGACCCTGCTGTTCTCGGCGACCTTCACCGACGACGTGATGAACCTCGCCAAGCAGTGGACCGTCGAT 
CCGGCGATCGTCGAGATCGAGCCGGAGAACGTCGCCAGCGATACCGTCGAGCAGCATGTCTACGCCGTGGCC 
GGCAGCGACAAGTACAAGCTGCTGTACAACCTGGTGGCGCAGAACAACTGGGAACGGGTGATGGTCTTCGCC 
AACCGCAAGGACGAAGTCCGCCGCATCGAGGAACGCCTGACCAAGGACGGCATCAGCGCCGCCCAGATGTCC 
GGCGACGTGCCGCAGCACAAGCGCATCCGCACCCTGGAAGGCTTCCGCGAAGGCAAGATCCGCGTCCTGGTG 
GCAACCGACGTGGCCGGCCGCGGCATCCACATCGACGGCATCAGCCATGTGATCAACTTCACCCTGCCGGAA 
GACCCGGACGACTACGTGCACCGTATCGGTCGTACCGGCCGCGCCGGCGCCTCGGGTACCTCGATCAGCTTC 
GCTGGCGAGGACGATGCCTTCGCCCTGCCGCCGATCGAAGAACTGCTGGGCCGCAAGATCACCTGCGAGATG 
CCGCCGGCCGAACTGCTCAAGCCGGTACCGCGCAAGCACTGA