ViewGene
Locus Name:
GeneID:
Location:

GeneID:2365
TrivialName: PA14_60380
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_60380
PAO1 Ortholog Locus:PA4561
Sequence Length:939
Protein Length:312
Start: 5383208
Stop: 5382270
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07949.1|AE004869_13 (AE004869) riboflavin kinase/FAD synthase [Pseudomonas aeruginosa PAO1]
Identities = 311/312 (99%), Positives = 311/312 (99%)
Sequence:
ATGCAGCTGCTTCGCGGACTACACAACCTGCAGCCCCTGGCCGGGGGCTGCGTCGCCACCATCGGTAACTTC
GACGGCGTCCACCTCGGGCACCAGGCTATCCTGGCGCGTCTGCGCGAGCGCTCGCTGGAGCTGGGCGTACCC
AGCTGCGTGGTGATTTTCGAGCCGCAGCCGCGCGAGTTCTTCTCCCCCGATTCGGCGCCGGTGCGTCTGACC
CGCCTGCGCGAGAAACTCGAGTTGCTGCGTGGGCAGGGCGTCGACGTGGTGCTCTGCCTGGCCTTCAACCGC
CGCTTGCGCGAGCTGTCGGCAGCCGAGTTCGTCCGCCAGGTCCTGGTCGATGGACTGGCGGTGCGGCACCTT
GAAGTGGGCGACGATTTCCGTTTCGGCTGCGACCGCTCCGGTGACTTCGCCTTCCTGGTGAACGCCAGTCGC
GAGCAGGGGTTCACCGTCGAGGCGGCCGCCACCGTCGAACTGGACGGCGTGCGGGTGAGCAGCACGCGGGTC
CGCCAGGCCCTGGCCGAGGGCGACCTGCATCTCGCCGAGCGCCTTCTGGGGCGTCCCTTCAGCCTGAGCGGA
CGGGTCCTGCATGGACAGAAACTCGGCCGGCAACTGGGCTCGCCCACGGCCAACATTCAACTGAAACGGCGC
AAGGCGCCGTTGAACGGGGTCTACCTGGTCAGTACGCTGGTCGATGGCCAGCGTTGCCAGGGGGTGGCGAAC
ATCGGCACCCGCCCTTCGGTGAACGGCGACGGCCGTCCCCATCTGGAAGTGCACCTGCTCGATTTCGCCGGC
GATCTATACGGCCGGCATCTGCAGgTGACCTTCCACCagAAGCTGCGCGACGAGCAGCGTTTTGCCTCCCTG
GAGGCACTCAAggCGGCGATTCTCGCGGATATCGCCGCCGCCCGGGCCTACTGGCTGGGCCAACCGCTTGAT
TGA
Translation:
MQLLRGLHNLQPLAGGCVATIGNFDGVHLGHQAILARLRERSLELGVPSCVVIFEPQPREFFSPDSAPVRLT
RLREKLELLRGQGVDVVLCLAFNRRLRELSAAEFVRQVLVDGLAVRHLEVGDDFRFGCDRSGDFAFLVNASR
EQGFTVEAAATVELDGVRVSSTRVRQALAEGDLHLAERLLGRPFSLSGRVLHGQKLGRQLGSPTANIQLKRR
KAPLNGVYLVSTLVDGQRCQGVANIGTRPSVNGDGRPHLEVHLLDFAGDLYGRHLQVTFHQKLRDEQRFASL
EALKAAILADIAAARAYWLGQPLD*
AnnotationID:2373GeneID:2365
AnnotatorUID: diggins
Modification Date/Time: 2005-05-05 07:07:09
Gene Name:ribF
Confidence Code:2
GeneProduct: riboflavin kinase/FAD synthase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(4) Biosynthesis of cofactors, prosthetic groups and carriers
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0196,pfam06574,pfam01687
Secondary Functional Category(ies):
EC Number:2.7.1.26
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66228.1|AE016251_4 (AE016776) riboflavin biosynthesis protein RibF [Pseudomonas putida
           KT2440]
          Length = 316

 Score =  467 bits (1202), Expect = e-131
 Identities = 231/311 (74%), Positives = 264/311 (84%)

>gb|AAN78529.1|AE016755_29 (AE016755) Riboflavin biosynthesis protein ribF; Riboflavin kinase;
           FMN adenylyltransferase [Escherichia coli CFT073]
          Length = 313

 Score =  317 bits (812), Expect = 6e-86
 Identities = 171/308 (55%), Positives = 213/308 (69%), Gaps = 3/308 (0%)








 
Structural Features:
COG0196, RibF, FAD synthase [Coenzyme metabolism]
CD-Length = 304 residues,  99.7% aligned
Score =  360 bits (926), Expect = 2e-100
Identities = 156/306 (50%), Positives = 198/306 (64%), Gaps = 3/306 (0%)

pfam06574, Flavokinase, Riboflavin kinase (Flavokinase).
CD-Length = 151 residues, 100.0% aligned
Score =  205 bits (523), Expect = 1e-53
Identities = 81/151 (53%), Positives = 101/151 (66%)

pfam01687, FAD_Synth, Riboflavin kinase / FAD synthetase.
CD-Length = 125 residues,  98.4% aligned
Score =  143 bits (362), Expect = 5e-35
Identities = 62/124 (50%), Positives = 77/124 (62%), Gaps = 2/124 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4733




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21879




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31652




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2365_cdd.html


    		




 
URL:

















    ReferenceID:33204




  
Author/Investigator(s):
        Gerdes SY, Scholle MD, D'Souza M, Bernal A, Baev MV, Farrell M, Kurnasov OV, Daugherty MD, Mseeh F, Polanuyer BM, Campbell JW, Anantha S, Shatalin KY, Chowdhury SA, Fonstein MY, Osterman AL.





  
Title:
        From genetic footprinting to antimicrobial drug targets: examples in cofactor biosynthetic pathways.




  
PubMed:
        12142426


MedLine:
        




    
Source:
J Bacteriol. 2002 Aug;184(16):4555-72.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12142426









           
Homologs By Global Alignment 

           

       



     
Gene ID:2365
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4007
                           PA4561_tr
                           translation of PA4561
                           312
                           99.67
                           99.67
                           0
                           1584.0
     

     
     
120891
                           gb|AAG07949.1|AE004869_13
                           (AE004869) riboflavin kinase/FAD synthase [Pseudomonas aeruginosa PAO1]
                           312
                           99.67
                           99.67
                           0
                           1584.0
     

     
     
120893
                           gb|AAO54347.1|
                           (AE016858) riboflavin biosynthesis protein RibF [Pseudomonas syringae pv. tomato str. DC3000]
                           312
                           73.71
                           83.01
                           4
                           1179.0
     

     
     
120894
                           gb|AAA26021.1|
                           (M35367) protein X [Pseudomonas fluorescens]
                           314
                           73.56
                           81.84
                           5
                           1151.0
     

     
     
120892
                           gb|AAN66228.1|AE016251_4
                           (AE016776) riboflavin biosynthesis protein RibF [Pseudomonas putida KT2440]
                           316
                           73.10
                           83.54
                           4
                           1201.0
     

     






      

          
GC ORFID: 45367How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4561Glimmer Score: 

          
Start: 4646887Stop: 4645949

          
Length: 939


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4561 translation of PA4561Homolog Bit Score 614.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3533 (ORF: BLASTX 465.0), t_PA4561 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAGCTGCTTCGCGGACTACACAACCTGCAGCCCCTGGCCGGGGGCTGCGTCGCCACCATCGGTAACTTC 
GACGGCGTCCACCTCGGGCACCAGGCTATCCTGGCGCGTCTGCGCGAGCGCTCGCTGGAGCTGGGCGTACCC 
AGCTGCGTGGTGATTTTCGAGCCGCAGCCGCGCGAGTTCTTCTCCCCCGATTCGGCGCCGGTGCGTCTGACC 
CGCCTGCGCGAGAAACTCGAGTTGCTGCGTGGGCAGGGCGTCGACGTGGTGCTCTGCCTGGCCTTCAACCGC 
CGCTTGCGCGAGCTGTCGGCAGCCGAGTTCGTCCGCCAGGTCCTGGTCGATGGACTGGCGGTGCGGCACCTT 
GAAGTGGGCGACGATTTCCGTTTCGGCTGCGACCGCTCCGGTGACTTCGCCTTCCTGGTGAACGCCAGTCGC 
GAGCAGGGGTTCACCGTCGAGGCGGCCGCCACCGTCGAACTGGACGGCGTGCGGGTGAGCAGCACGCGGGTC 
CGCCAGGCCCTGGCCGAGGGCGACCTGCATCTCGCCGAGCGCCTTCTGGGGCGTCCCTTCAGCCTGAGCGGA 
CGGGTCCTGCATGGACAGAAACTCGGCCGGCAACTGGGCTCGCCCACGGCCAACATTCAACTGAAACGGCGC 
AAGGCGCCGTTGAACGGGGTCTACCTGGTCAGTACGCTGGTCGATGGCCAGCGTTGCCAGGGGGTGGCGAAC 
ATCGGCACCCGCCCTTCGGTGAACGGCGACGGCCGTCCCCATCTGGAAGTGCACCTGCTCGATTTCGCCGGC 
GATCTATACGGCCGGCATCTGCAGgTGACCTTCCACCagAAGCTGCGCGACGAGCAGCGTTTTGCCTCCCTG 
GAGGCACTCAAggCGGCGATTCTCGCGGATATCGCCGCCGCCCGGGCCTACTGGCTGGGCCAACCGCTTGAT 
TGA