ViewGene
Locus Name:
GeneID:
Location:

GeneID:2276
TrivialName: PA14_39320
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_39320
PAO1 Ortholog Locus:PA1948
Sequence Length:999
Protein Length:332
Start: 3500820
Stop: 3499822
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05336.1|AE004621_7 (AE004621) membrane protein component of ABC ribose transporter [Pseudomonas aeruginosa PAO1]
Identities = 332/332 (100%), Positives = 332/332 (100%)
Sequence:
ATGAGCGACCCGACGTCTTCCGCTACCGCCGCCGCAGCGCCAACCCTGCGACGCGGCAACTATTTCGGCCTG
GGCACCTACCTCGGCCTGGCCGGCGCGCTGCTGGCGATGATCGCGCTGTTCTCGGCGCTGAGCAGCCACTTC
CTCAGCTATGGCACCTTCCTCGCCATCGCCAACCAGATCCCCGACCTGGTGGTGCTGGCGGTGGGCATGACC
TTCATCCTGATCGTCGGCGGCATCGATCTCTCGGTAGGTTCGGTGCTGGCCCTGGCGGCCTCGGCGGTAAGC
CTGGCGACGCTCGGCTGGGGCTGGGGCGTGCTGCCGGCGGCGATGCTCGGGATGGCCTGCGCGACCCTGGCC
GGCTGCGTCACCGGTTCGATCACGGTGGCCTGGCGGATTCCCTCGTTCATCGTGTCCCTCGGGGTGCTGGAG
ATGGCCCGTGGGCTGGCCTACCAGATGACCGACTCGCGCACGGCCTATATCGGCGACGCCTATGCCTGGCTG
TCCAATCCGCTGGCGTTCGGCATCTCGCCGGCCTTCGTGATCGCCCTGCTGGTGATGTTCGCCGCCCAGGCG
GTGCTCACCCGCACGGTGTTCGGCCGCTACCTGATCGGCATCGGCACCAACGAAGAAGCGGTGCGATTGGCC
GGTGTGAACCCGAAACCCTATAAGATTGCAGTATTCGCCCTGATGGGGCTGCTCGCCGGGTTGGCCGCGCTG
TTCCAGATCTCGCGTCTGGAAGCGGCCGATCCCAACGCCGGGGTCGGCCTGGAACTCCAGGTCATCGCCGCG
GTGGTGATCGGCGGCACCAGCCTGATGGGCGGGCGAGGTTCGGTGGTCAGCACCTTCTTCGGCGTGCTGATC
ATTTCCGTATTGGCGGCGGGGCTGGCGCAGATCGGTGCGTCGGAGCCGACCAAACGAATCATTACCGGGGCG
GTGATCGTGGTAGCGGTGGTGCTGGATACCTACCGCAGCCATCGCGCCCGCAGACAGGGCTGA
Translation:
MSDPTSSATAAAAPTLRRGNYFGLGTYLGLAGALLAMIALFSALSSHFLSYGTFLAIANQIPDLVVLAVGMT
FILIVGGIDLSVGSVLALAASAVSLATLGWGWGVLPAAMLGMACATLAGCVTGSITVAWRIPSFIVSLGVLE
MARGLAYQMTDSRTAYIGDAYAWLSNPLAFGISPAFVIALLVMFAAQAVLTRTVFGRYLIGIGTNEEAVRLA
GVNPKPYKIAVFALMGLLAGLAALFQISRLEAADPNAGVGLELQVIAAVVIGGTSLMGGRGSVVSTFFGVLI
ISVLAAGLAQIGASEPTKRIITGAVIVVAVVLDTYRSHRARRQG*
AnnotationID:2284GeneID:2276
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 16:04:44
Gene Name:rbsC
Confidence Code:2
GeneProduct:ribose ABC transporter, permease protein
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:COG1172
Secondary Functional Category(ies):carbon compound catabolism
EC Number:3.6.3.17
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55880.1| (AE016864) ribose ABC transporter, permease protein [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 330

 Score =  541 bits (1395), Expect = e-153
 Identities = 274/319 (85%), Positives = 300/319 (94%)

>gb|AAO55880.1| (AE016864) ribose ABC transporter, permease protein [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 330

 Score =  541 bits (1395), Expect = e-153
 Identities = 274/319 (85%), Positives = 300/319 (94%)

>emb|CAD74538.1| (BX294143) ribose transport system permease protein RbsC [Pirellula
           sp.]
          Length = 326

 Score =  307 bits (787), Expect = 5e-83
 Identities = 156/307 (50%), Positives = 214/307 (69%), Gaps = 1/307 (0%)






 
Structural Features:
COG1172, AraH, Ribose/xylose/arabinose/galactoside ABC-type transport systems, 
permease components 
[Carbohydrate transport and metabolism]
CD-Length = 316 residues,  96.8% aligned
Score =  204 bits (522), Expect = 9e-54
Identities = 143/306 (46%), Positives = 187/306 (61%), Gaps = 2/306 (0%)








   
Genomic Context:






   
Comment:


















    ReferenceID:4555




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21701




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32771




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2276_cdd.html


    		




 
URL:

















    ReferenceID:34355




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





  
Title:
        The nucleotide sequences of the rbsD, rbsA, and rbsC genes of Escherichia coli K12.




  
PubMed:
        3011793


MedLine:
        




    
Source:
J Biol Chem. 1986 Jun 15;261(17):7652-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3011793

















    ReferenceID:34356




  
Author/Investigator(s):
        Iida A, Harayama S, Iino T, Hazelbauer GL.





  
Title:
        Molecular cloning and characterization of genes required for ribose transport and utilization in Escherichia coli K-12.




  
PubMed:
        6327617


MedLine:
        




    
Source:
J Bacteriol. 1984 May;158(2):674-82.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6327617









           
Homologs By Global Alignment 

           

       



     
Gene ID:2276
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3870
                           PA1948_tr
                           translation of PA1948
                           332
                           99.99
                           99.99
                           0
                           1625.0
     

     
     
118401
                           gb|AAG05336.1|AE004621_7
                           (AE004621) membrane protein component of ABC ribose transporter [Pseudomonas aeruginosa PAO1]
                           332
                           99.99
                           99.99
                           0
                           1625.0
     

     
     
118403
                           gb|AAN68068.1|AE016439_3
                           (AE016783) ribose ABC transporter, permease protein [Pseudomonas putida KT2440]
                           333
                           83.18
                           90.09
                           3
                           1378.0
     

     
     
118402
                           gb|AAO55880.1|
                           (AE016864) ribose ABC transporter, permease protein [Pseudomonas syringae pv. tomato str. DC3000]
                           333
                           82.88
                           91.59
                           4
                           1395.0
     

     
     
118404
                           emb|CAD14717.1|
                           (AL646062) PROBABLE TRANSMEMBRANE ABC TRANSPORTER PROTEIN [Ralstonia solanacearum]
                           349
                           65.61
                           75.64
                           18
                           1114.0
     

     






      

          
GC ORFID: 45278How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1948Glimmer Score: 

          
Start: 1453091Stop: 1454089

          
Length: 999


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1948 translation of PA1948Homolog Bit Score 630.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5855 (ORF: BLASTX 406.0), t_PA1948 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGACCCGACGTCTTCCGCTACCGCCGCCGCAGCGCCAACCCTGCGACGCGGCAACTATTTCGGCCTG 
GGCACCTACCTCGGCCTGGCCGGCGCGCTGCTGGCGATGATCGCGCTGTTCTCGGCGCTGAGCAGCCACTTC 
CTCAGCTATGGCACCTTCCTCGCCATCGCCAACCAGATCCCCGACCTGGTGGTGCTGGCGGTGGGCATGACC 
TTCATCCTGATCGTCGGCGGCATCGATCTCTCGGTAGGTTCGGTGCTGGCCCTGGCGGCCTCGGCGGTAAGC 
CTGGCGACGCTCGGCTGGGGCTGGGGCGTGCTGCCGGCGGCGATGCTCGGGATGGCCTGCGCGACCCTGGCC 
GGCTGCGTCACCGGTTCGATCACGGTGGCCTGGCGGATTCCCTCGTTCATCGTGTCCCTCGGGGTGCTGGAG 
ATGGCCCGTGGGCTGGCCTACCAGATGACCGACTCGCGCACGGCCTATATCGGCGACGCCTATGCCTGGCTG 
TCCAATCCGCTGGCGTTCGGCATCTCGCCGGCCTTCGTGATCGCCCTGCTGGTGATGTTCGCCGCCCAGGCG 
GTGCTCACCCGCACGGTGTTCGGCCGCTACCTGATCGGCATCGGCACCAACGAAGAAGCGGTGCGATTGGCC 
GGTGTGAACCCGAAACCCTATAAGATTGCAGTATTCGCCCTGATGGGGCTGCTCGCCGGGTTGGCCGCGCTG 
TTCCAGATCTCGCGTCTGGAAGCGGCCGATCCCAACGCCGGGGTCGGCCTGGAACTCCAGGTCATCGCCGCG 
GTGGTGATCGGCGGCACCAGCCTGATGGGCGGGCGAGGTTCGGTGGTCAGCACCTTCTTCGGCGTGCTGATC 
ATTTCCGTATTGGCGGCGGGGCTGGCGCAGATCGGTGCGTCGGAGCCGACCAAACGAATCATTACCGGGGCG 
GTGATCGTGGTAGCGGTGGTGCTGGATACCTACCGCAGCCATCGCGCCCGCAGACAGGGCTGA