ViewGene
Locus Name:
GeneID:
Location:

GeneID:2437
TrivialName: PA14_72000
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_72000
PAO1 Ortholog Locus:PA5454
Sequence Length:915
Protein Length:304
Start: 6417911
Stop: 6416997
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08839.1|AE004958_9 (AE004958) oxidoreductase Rmd [Pseudomonas aeruginosa PAO1]
Identities = 303/304 (99%), Positives = 303/304 (99%)
Sequence:
TTGACTCAGCGTCTGTTCGTCACCGGGCTCTCCGGTTTCGTAGGCAAGCATCTTCAAGCTTATCTGGCAGCG
GCCCACACGCCGTGGGCGCTCCTTCCCGTACCGCATCGTTACGATCTGCTGGAGCCGGATTCGCTGGGCGAC
CTCTGGCCGGAGCTGCCGGATGCGGTCATCCACCTGGCCGGGCAGACCTATGTGCCGGAGGCCTTCCGCGAT
CCTGCGCGGACCCTGCAGATCAACCTCCTTGGCACCCTGAACCTGCTCCAGGCGCTTAAGGCGCGGGGCTTC
TCCGGTACCTTCCTGTACATCAGCTCCGGCGACGTCTACGGCCAGGTGGCCGAGGCGGCGTTGCCGATCCAC
GAGGAACTCATCCCCCACCCGCGCAATCCCTATGCGGTCAGCAAGCTGGCGGCCGAGTCGCTGTGCCTGCAG
TGGGGTATCACCGAAGGCTGGCGGGTGCTGGTGGCGCGGCCGTTCAACCATATCGGGCCGGGGCAGAAGGAC
AGCTTCGTGATCGCCAGCGCCGCGCGGCAGATCGCCCGGATGAAGCAGGGCTTGCAGGCCAATCGGCTGGAA
GTGGGGGACATCGACGTCAGCCGTGATTTCCTCGATGTCCAGGACGTGCTGTCAGCCTATCTGCGCCTGCTC
TCCCACGGCGAGGCGGGCGCCGTCTATAACGTCTGTTCCGGGCAGGAGCAGAAGATTCGCGAGCTGATCGAA
CTGCTGGCGGACATCGCCCAGGTCGAGCTGGAAATCGTTCAGGACCCTGCCCGGATGCGCCGGGCGGAACAG
CGTCGGGTTCGCGGCAGCCATGCGCGACTGCATGACGCCACGGGCTGGAAGCCTGAAATAACCATAAAACAG
TCCCTGCGGGCGATCCTGTCCGACTGGGAGTCACGGGTACGAGAAGAATGA
Translation:
MTQRLFVTGLSGFVGKHLQAYLAAAHTPWALLPVPHRYDLLEPDSLGDLWPELPDAVIHLAGQTYVPEAFRD
PARTLQINLLGTLNLLQALKARGFSGTFLYISSGDVYGQVAEAALPIHEELIPHPRNPYAVSKLAAESLCLQ
WGITEGWRVLVARPFNHIGPGQKDSFVIASAARQIARMKQGLQANRLEVGDIDVSRDFLDVQDVLSAYLRLL
SHGEAGAVYNVCSGQEQKIRELIELLADIAQVELEIVQDPARMRRAEQRRVRGSHARLHDATGWKPEITIKQ
SLRAILSDWESRVREE*
AnnotationID:2445GeneID:2437
AnnotatorUID: diggins
Modification Date/Time: 2005-03-20 08:08:21
Gene Name:rmd
Confidence Code:1
GeneProduct:oxidoreductase Rmd
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:putative nucleoside-diphosphate-sugar epimerase
Functional Category Confidence Code:5
COGs:COG0451,pfam01370,COG1089
Secondary Functional Category(ies):cell envelope biogenesis, outer membrane
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:
COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases 
[Cell envelope biogenesis, outer membrane / 
Carbohydrate transport and metabolism]
CD-Length = 314 residues,  98.7% aligned
Score =  168 bits (425), Expect = 9e-43
Identities = 104/313 (33%), Positives = 151/313 (48%), Gaps = 19/313 (6%)

pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
CD-Length = 310 residues,  99.4% aligned
Score =  146 bits (370), Expect = 3e-36
Identities = 85/320 (26%), Positives = 136/320 (42%), Gaps = 36/320 (11%)

COG1089, Gmd, GDP-D-mannose dehydratase 
[Cell envelope biogenesis, outer membrane]
CD-Length = 345 residues, 100.0% aligned
Score =  143 bits (363), Expect = 2e-35
Identities = 94/349 (26%), Positives = 164/349 (46%), Gaps = 49/349 (14%)







   
Genomic Context:






   
Comment:


















    ReferenceID:14591




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22023




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34639




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2437_cdd.html


    		




 
URL:

















    ReferenceID:35619




  
Author/Investigator(s):
        Kneidinger B, Graninger M, Adam G, Puchberger M, Kosma P, Zayni S, Messner P.





  
Title:
        Identification of two GDP-6-deoxy-D-lyxo-4-hexulose reductases synthesizing GDP-D-rhamnose in Aneurinibacillus thermoaerophilus L420-91T.




  
PubMed:
        11096116


MedLine:
        




    
Source:
J Biol Chem. 2001 Feb 23;276(8):5577-83. Epub 2000 Nov 28.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11096116









           
Homologs By Global Alignment 

           

       



     
Gene ID:2437
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4092
                           PA5454_tr
                           translation of PA5454
                           304
                           99.67
                           99.67
                           0
                           1560.0
     

     
     
122578
                           gb|AAG08839.1|AE004958_9
                           (AE004958) oxidoreductase Rmd [Pseudomonas aeruginosa PAO1]
                           304
                           99.34
                           99.67
                           0
                           1558.0
     

     
     
122577
                           gb|AAC72282.2|
                           (AF009955) oxidoreductase Rmd [Pseudomonas aeruginosa]
                           313
                           96.80
                           96.80
                           9
                           1560.0
     

     






      

          
GC ORFID: 45439How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5454Glimmer Score: 

          
Start: 5681600Stop: 5680686

          
Length: 915


          
Start Codon: TTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5454 translation of PA5454Homolog Bit Score 605.0

          
Other Homologs:  t_PA5454 (ORF: GLIMMER)

          
GC ORF Sequence

           
TTGACTCAGCGTCTGTTCGTCACCGGGCTCTCCGGTTTCGTAGGCAAGCATCTTCAAGCTTATCTGGCAGCG 
GCCCACACGCCGTGGGCGCTCCTTCCCGTACCGCATCGTTACGATCTGCTGGAGCCGGATTCGCTGGGCGAC 
CTCTGGCCGGAGCTGCCGGATGCGGTCATCCACCTGGCCGGGCAGACCTATGTGCCGGAGGCCTTCCGCGAT 
CCTGCGCGGACCCTGCAGATCAACCTCCTTGGCACCCTGAACCTGCTCCAGGCGCTTAAGGCGCGGGGCTTC 
TCCGGTACCTTCCTGTACATCAGCTCCGGCGACGTCTACGGCCAGGTGGCCGAGGCGGCGTTGCCGATCCAC 
GAGGAACTCATCCCCCACCCGCGCAATCCCTATGCGGTCAGCAAGCTGGCGGCCGAGTCGCTGTGCCTGCAG 
TGGGGTATCACCGAAGGCTGGCGGGTGCTGGTGGCGCGGCCGTTCAACCATATCGGGCCGGGGCAGAAGGAC 
AGCTTCGTGATCGCCAGCGCCGCGCGGCAGATCGCCCGGATGAAGCAGGGCTTGCAGGCCAATCGGCTGGAA 
GTGGGGGACATCGACGTCAGCCGTGATTTCCTCGATGTCCAGGACGTGCTGTCAGCCTATCTGCGCCTGCTC 
TCCCACGGCGAGGCGGGCGCCGTCTATAACGTCTGTTCCGGGCAGGAGCAGAAGATTCGCGAGCTGATCGAA 
CTGCTGGCGGACATCGCCCAGGTCGAGCTGGAAATCGTTCAGGACCCTGCCCGGATGCGCCGGGCGGAACAG 
CGTCGGGTTCGCGGCAGCCATGCGCGACTGCATGACGCCACGGGCTGGAAGCCTGAAATAACCATAAAACAG 
TCCCTGCGGGCGATCCTGTCCGACTGGGAGTCACGGGTACGAGAAGAATGA