ViewGene
Locus Name:
GeneID:
Location:

GeneID:1868
TrivialName: PA14_66250
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_66250
PAO1 Ortholog Locus:PA5012
Sequence Length:1038
Protein Length:345
Start: 5903284
Stop: 5902247
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08397.1|AE004913_12 (AE004913) heptosyltransferase II [Pseudomonas aeruginosa PAO1]
Identities = 345/345 (100%), Positives = 345/345 (100%)
Sequence:
ATGAGAATTCTGATCGTAGGTCCCTCCTGGGTGGGGGATATGGTGATGGCGCAGACCCTGTTCCAGTGTCTG
CGCCAGCGGCATCCCGAGTGCGTGATCGACGTGCTGGCGCCCGAGTGGAGCCGACCGATCCTCGAGCGCATG
CCCGAGGTGCGCCAGGCCCTGAGCTTCCCGCTCGGCCACGGGGTGATGGACGTCGCCACCCGGCGCCGGATC
GGACGCGGCCTGCGCGGTCAGTACGAGCAGGCGATCCTGCTGCCCAACTCGCTGAAGTCGGCGCTGGTGCCC
TGGTTCGCCGGAATACCGAAGCGCACCGGCTGGCGCGGCGAGATGCGCTACGGGCTGCTCAATGACATCCGC
AAGCTCGACAAGCAGCGCTATCCGCTGATGATCGAACGCTTCATGGCCCTGGCCTTCGAGCCGGGCGTGGAG
TTGCCGAAGCCCTATCCGCAGCCGCGCCTGCGGATCGACGACGGCAGCCGCCAGGCGGCGCTCGACAAGTTC
GCCCTGAGCCTGGACCGCCCGGTGCTGGCGCTCTGTCCCGGCGCCGAGTTCGGCGAGGCCAAGCGCTGGCCG
GCGGAACACTACGCCGCGGTTGCCGAGGCGAAGATCCGTGCCGGCTGGCAGGTCTGGCTGTTCGGCTCGAAG
AACGACCATCCCGGTGGAGAGGAGATTCGCCAGCGCCTGATTCCGGGGTTGCGCGAGGAGTCCTTCAATCTT
GCCGGGGAGACTTCGCTGGCCGAGGCCATCGACCTGATGTCCTGCGCTGGCGCGGTGGTGTCCAACGATTCC
GGCCTGATGCACGTGGCGGCCGCGCTGGATCGCCCGCTGGTGGGCGTCTATGGCTCCACCTCGCCGCAGTTC
ACCCCGCCGCTGGCGGACCGGGTGGAGATCGTCCGCCTCGGTCTCGAGTGCAGCCCGTGCTTCGAGCGCACC
TGTCGCTTCGGCCACTACAATTGCCTCCGCGAGCTGCCGCCTGGTCTGGTATTGCAAGCCCTGGAGCGGCTG
GTCGGCGACCCTGCCGAGGTCGCCGGATGA
Translation:
MRILIVGPSWVGDMVMAQTLFQCLRQRHPECVIDVLAPEWSRPILERMPEVRQALSFPLGHGVMDVATRRRI
GRGLRGQYEQAILLPNSLKSALVPWFAGIPKRTGWRGEMRYGLLNDIRKLDKQRYPLMIERFMALAFEPGVE
LPKPYPQPRLRIDDGSRQAALDKFALSLDRPVLALCPGAEFGEAKRWPAEHYAAVAEAKIRAGWQVWLFGSK
NDHPGGEEIRQRLIPGLREESFNLAGETSLAEAIDLMSCAGAVVSNDSGLMHVAAALDRPLVGVYGSTSPQF
TPPLADRVEIVRLGLECSPCFERTCRFGHYNCLRELPPGLVLQALERLVGDPAEVAG*
AnnotationID:1877GeneID:1868
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 09:09:24
Gene Name:waaF
Confidence Code:1
GeneProduct:heptosyltransferase II
Cell Localization:()
Synonyms:rfaF
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:ADP-heptose:LPS heptosyltransferase
Functional Category Confidence Code:5
COGs:COG0859,pfam01075
Secondary Functional Category(ies):cell envelope biogenesis, outer membrane
EC Number:2.-.-.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58431.1| (AE016874) ADP-heptose--LPS heptosyltransferase II [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 344

 Score =  595 bits (1535), Expect = e-169
 Identities = 288/344 (83%), Positives = 308/344 (89%)

>gb|AAN65972.1|AE016226_1 (AE016775) heptosyltransferase II [Pseudomonas putida KT2440]
          Length = 349

 Score =  589 bits (1519), Expect = e-168
 Identities = 283/338 (83%), Positives = 309/338 (91%)

>gb|AAO91157.1| (AE016965) ADP-heptose--LPS heptosyltransferase II [Coxiella
           burnetii RSA 493]
          Length = 343

 Score =  386 bits (991), Expect = e-106
 Identities = 187/337 (55%), Positives = 246/337 (72%), Gaps = 6/337 (1%)








 
Structural Features:
COG0859, RfaF, ADP-heptose:LPS heptosyltransferase 
[Cell envelope biogenesis, outer membrane]
CD-Length = 334 residues,  99.4% aligned
Score =  285 bits (731), Expect = 4e-78
Identities = 129/344 (37%), Positives = 184/344 (53%), Gaps = 16/344 (4%)

pfam01075, Glyco_transf_9, Glycosyltransferase family 9 (heptosyltransferase).
CD-Length = 248 residues, 100.0% aligned
Score =  275 bits (704), Expect = 6e-75
Identities = 125/253 (49%), Positives = 155/253 (61%), Gaps = 7/253 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3739




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20886




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35083




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1868_cdd.html


    		




 
URL:

















    ReferenceID:35870




  
Author/Investigator(s):
        de Kievit TR, Lam JS.





  
Title:
        Isolation and characterization of two genes, waaC (rfaC) and waaF (rfaF), involved in Pseudomonas aeruginosa serotype O5 inner-core biosynthesis.




  
PubMed:
        9171387


MedLine:
        




    
Source:
J Bacteriol. 1997 Jun;179(11):3451-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=9171387









           
Homologs By Global Alignment 

           

       



     
Gene ID:1868
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3303
                           PA5012_tr
                           translation of PA5012
                           345
                           99.99
                           99.99
                           0
                           1821.0
     

     
     
102498
                           gb|AAG08397.1|AE004913_12
                           (AE004913) heptosyltransferase II [Pseudomonas aeruginosa PAO1]
                           345
                           99.99
                           99.99
                           0
                           1821.0
     

     
     
102499
                           gb|AAD09570.1|
                           (U73731) RfaF [Pseudomonas aeruginosa]
                           345
                           99.99
                           99.99
                           0
                           1821.0
     

     
     
102500
                           gb|AAC45367.1|
                           (U70983) heptosyl transferase II [Pseudomonas aeruginosa]
                           345
                           99.99
                           99.99
                           0
                           1821.0
     

     
     
102501
                           gb|AAC33166.1|
                           (U63816) ADP-heptose:LPS heptosyltransferase homolog [Pseudomonas aeruginosa]
                           345
                           99.99
                           99.99
                           0
                           1821.0
     

     






      

          
GC ORFID: 44870How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5012Glimmer Score: 

          
Start: 5166967Stop: 5165930

          
Length: 1038


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5012 translation of PA5012Homolog Bit Score 706.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3378 (ORF: BLASTX 589.0), t_PA5012 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGAATTCTGATCGTAGGTCCCTCCTGGGTGGGGGATATGGTGATGGCGCAGACCCTGTTCCAGTGTCTG 
CGCCAGCGGCATCCCGAGTGCGTGATCGACGTGCTGGCGCCCGAGTGGAGCCGACCGATCCTCGAGCGCATG 
CCCGAGGTGCGCCAGGCCCTGAGCTTCCCGCTCGGCCACGGGGTGATGGACGTCGCCACCCGGCGCCGGATC 
GGACGCGGCCTGCGCGGTCAGTACGAGCAGGCGATCCTGCTGCCCAACTCGCTGAAGTCGGCGCTGGTGCCC 
TGGTTCGCCGGAATACCGAAGCGCACCGGCTGGCGCGGCGAGATGCGCTACGGGCTGCTCAATGACATCCGC 
AAGCTCGACAAGCAGCGCTATCCGCTGATGATCGAACGCTTCATGGCCCTGGCCTTCGAGCCGGGCGTGGAG 
TTGCCGAAGCCCTATCCGCAGCCGCGCCTGCGGATCGACGACGGCAGCCGCCAGGCGGCGCTCGACAAGTTC 
GCCCTGAGCCTGGACCGCCCGGTGCTGGCGCTCTGTCCCGGCGCCGAGTTCGGCGAGGCCAAGCGCTGGCCG 
GCGGAACACTACGCCGCGGTTGCCGAGGCGAAGATCCGTGCCGGCTGGCAGGTCTGGCTGTTCGGCTCGAAG 
AACGACCATCCCGGTGGAGAGGAGATTCGCCAGCGCCTGATTCCGGGGTTGCGCGAGGAGTCCTTCAATCTT 
GCCGGGGAGACTTCGCTGGCCGAGGCCATCGACCTGATGTCCTGCGCTGGCGCGGTGGTGTCCAACGATTCC 
GGCCTGATGCACGTGGCGGCCGCGCTGGATCGCCCGCTGGTGGGCGTCTATGGCTCCACCTCGCCGCAGTTC 
ACCCCGCCGCTGGCGGACCGGGTGGAGATCGTCCGCCTCGGTCTCGAGTGCAGCCCGTGCTTCGAGCGCACC 
TGTCGCTTCGGCCACTACAATTGCCTCCGCGAGCTGCCGCCTGGTCTGGTATTGCAAGCCCTGGAGCGGCTG 
GTCGGCGACCCTGCCGAGGTCGCCGGATGA