ViewGene
Locus Name:
GeneID:
Location:

GeneID:2442
TrivialName: PA14_39350
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_39350
PAO1 Ortholog Locus:PA1946
Sequence Length:960
Protein Length:319
Start: 3503357
Stop: 3502398
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05334.1|AE004621_5 (AE004621) binding protein component precursor of ABC ribose transporter [Pseudomonas aeruginosa PAO1]
Identities = 316/319 (99%), Positives = 317/319 (99%)
Sequence:
ATGAAGCGGGTCGCTTCCCGGCGCCTGTTGGCTGCCGTTGTGCTGACTGCCTGTTCCTCGTTCCTGCCCCTG
TCCGCCGTCCACGCGGAAACTCCCGAGAAGCCCAGGATCGCGCTGGTGATGAAGTCGCTGGCGAACGAGTTC
TTCCTGACCATGGAGGACGGCGCCAAGGCCTACCAGAAGGAGCATGCCGACCGGTTCGAACTGGTTTCCAAC
GGCATCAAGGACGAGACCGATACCTCCAGCCAGATCCGCATCGTCGAGCAGATGATCGTTTCCGGGGTCGAC
GCACTGGTGATCGCGCCGGCCGATTCCAAGGCGCTGGTGCCGGTGGTGAAGAAAGCGCTGGACGCCGGCATC
GTGGTGGTCAACATCGACAACCGCTTCGACCCGCAGGTGCTGCAGGCGAAGAAGATCGGCGTGCCCTTCGTC
GGTCCCGACAACCGCAAGGGCGCGCGGCTGGTCGGCGAGTACCTGGCGAAGCGACTGAAGGCCGGTGACGAG
GTCGGCATCATCGAAGGGGTCTCCACGACCACCAATGCCCAGCAGCGCACCGCCGGCTTCAAGGATGCGATG
GACGCGGCGGGGATGAAGATCGTCTCCTTGCAGTCGGGCAACTGGGAAATCGAGAAGGGCAACGCGGTGGCT
TCGGCGATGCTCAACGAGCATCCGGACCTCAAGGCGCTGCTCGCCGGCAACGACAGCATGGCCCTCGGCGCG
GTATCGGCGGTGCGCGCGGCGGGCCGCGCCGGGCAGGTGAAGGTGGTCGGCTACGACAATATCCAGGCGATC
AAGCCGATGCTCCAGGATGGCCGGGTGCTGGCTACTGCCGACCAGTTCGCCGCGAAGCAGGCGGTGTTCGGT
ATCCAGACCGCGCTCAAGCTGCTTGCTGGGCAAGCCCCGGAACATGAGAAGGACGGCGTGGTCGAGACGCCT
GTCGAGTTGGTGACCGCGCCCTGA
Translation:
MKRVASRRLLAAVVLTACSSFLPLSAVHAETPEKPRIALVMKSLANEFFLTMEDGAKAYQKEHADRFELVSN
GIKDETDTSSQIRIVEQMIVSGVDALVIAPADSKALVPVVKKALDAGIVVVNIDNRFDPQVLQAKKIGVPFV
GPDNRKGARLVGEYLAKRLKAGDEVGIIEGVSTTTNAQQRTAGFKDAMDAAGMKIVSLQSGNWEIEKGNAVA
SAMLNEHPDLKALLAGNDSMALGAVSAVRAAGRAGQVKVVGYDNIQAIKPMLQDGRVLATADQFAAKQAVFG
IQTALKLLAGQAPEHEKDGVVETPVELVTAP*
AnnotationID:2450GeneID:2442
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 16:04:10
Gene Name:rbsB
Confidence Code:2
GeneProduct:binding protein component precursor of ABC ribose transporter
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1879
Secondary Functional Category(ies):
EC Number:3.6.3.17
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55878.1| (AE016864) ribose ABC transporter, periplasmic ribose-binding
           protein [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 319

 Score =  486 bits (1250), Expect = e-136
 Identities = 248/319 (77%), Positives = 286/319 (89%)

>gb|AAN68066.1|AE016439_1 (AE016783) ribose ABC transporter, periplasmic ribose-binding
           protein [Pseudomonas putida KT2440]
          Length = 319

 Score =  460 bits (1183), Expect = e-129
 Identities = 237/318 (74%), Positives = 277/318 (87%), Gaps = 3/318 (0%)

>emb|CAD74540.1| (BX294143) D-ribose-binding periplasmic protein [Pirellula sp.]
          Length = 377

 Score =  345 bits (884), Expect = 3e-94
 Identities = 172/318 (54%), Positives = 239/318 (75%), Gaps = 1/318 (0%)






 
Structural Features:
COG1879, RbsB, ABC-type sugar transport system, periplasmic component 
[Carbohydrate transport and metabolism]
CD-Length = 322 residues,  95.7% aligned
Score =  184 bits (467), Expect = 2e-47
Identities = 111/320 (34%), Positives = 164/320 (51%), Gaps = 14/320 (4%)







   
Genomic Context:






   
Comment:


















    ReferenceID:4887




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22033




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32773




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2442_cdd.html


    		




 
URL:

















    ReferenceID:34350




  
Author/Investigator(s):
        Hope JN, Bell AW, Hermodson MA, Groarke JM.





  
Title:
        Ribokinase from Escherichia coli K12. Nucleotide sequence and overexpression of the rbsK gene and purification of ribokinase.




  
PubMed:
        3011794


MedLine:
        




    
Source:
J Biol Chem. 1986 Jun 15;261(17):7663-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3011794









           
Homologs By Global Alignment 

           

       



     
Gene ID:2442
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4099
                           PA1946_tr
                           translation of PA1946
                           319
                           99.05
                           99.37
                           0
                           1558.0
     

     
     
122639
                           gb|AAG05334.1|AE004621_5
                           (AE004621) binding protein component precursor of ABC ribose transporter [Pseudomonas aeruginosa PAO1]
                           319
                           99.05
                           99.37
                           0
                           1558.0
     

     
     
122640
                           gb|AAO55878.1|
                           (AE016864) ribose ABC transporter, periplasmic ribose-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           319
                           77.74
                           89.65
                           0
                           1250.0
     

     
     
122641
                           gb|AAN68066.1|AE016439_1
                           (AE016783) ribose ABC transporter, periplasmic ribose-binding protein [Pseudomonas putida KT2440]
                           321
                           73.83
                           86.29
                           4
                           1185.0
     

     
     
122642
                           emb|CAD14719.1|
                           (AL646062) PROBABLE SUGAR-BINDING PERIPLASMIC (PBP) ABC TRANSPORTER PROTEIN [Ralstonia solanacearum]
                           321
                           65.42
                           78.81
                           4
                           1042.0
     

     






      

          
GC ORFID: 45444How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1946Glimmer Score: 

          
Start: 1450554Stop: 1451513

          
Length: 960


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1946 translation of PA1946Homolog Bit Score 604.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5852 (ORF: BLASTX 312.0), t_PA1946 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAGCGGGTCGCTTCCCGGCGCCTGTTGGCTGCCGTTGTGCTGACTGCCTGTTCCTCGTTCCTGCCCCTG 
TCCGCCGTCCACGCGGAAACTCCCGAGAAGCCCAGGATCGCGCTGGTGATGAAGTCGCTGGCGAACGAGTTC 
TTCCTGACCATGGAGGACGGCGCCAAGGCCTACCAGAAGGAGCATGCCGACCGGTTCGAACTGGTTTCCAAC 
GGCATCAAGGACGAGACCGATACCTCCAGCCAGATCCGCATCGTCGAGCAGATGATCGTTTCCGGGGTCGAC 
GCACTGGTGATCGCGCCGGCCGATTCCAAGGCGCTGGTGCCGGTGGTGAAGAAAGCGCTGGACGCCGGCATC 
GTGGTGGTCAACATCGACAACCGCTTCGACCCGCAGGTGCTGCAGGCGAAGAAGATCGGCGTGCCCTTCGTC 
GGTCCCGACAACCGCAAGGGCGCGCGGCTGGTCGGCGAGTACCTGGCGAAGCGACTGAAGGCCGGTGACGAG 
GTCGGCATCATCGAAGGGGTCTCCACGACCACCAATGCCCAGCAGCGCACCGCCGGCTTCAAGGATGCGATG 
GACGCGGCGGGGATGAAGATCGTCTCCTTGCAGTCGGGCAACTGGGAAATCGAGAAGGGCAACGCGGTGGCT 
TCGGCGATGCTCAACGAGCATCCGGACCTCAAGGCGCTGCTCGCCGGCAACGACAGCATGGCCCTCGGCGCG 
GTATCGGCGGTGCGCGCGGCGGGCCGCGCCGGGCAGGTGAAGGTGGTCGGCTACGACAATATCCAGGCGATC 
AAGCCGATGCTCCAGGATGGCCGGGTGCTGGCTACTGCCGACCAGTTCGCCGCGAAGCAGGCGGTGTTCGGT 
ATCCAGACCGCGCTCAAGCTGCTTGCTGGGCAAGCCCCGGAACATGAGAAGGACGGCGTGGTCGAGACGCCT 
GTCGAGTTGGTGACCGCGCCCTGA