ViewGene
Locus Name:
GeneID:
Location:

GeneID:2151
TrivialName: PA14_71990
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71990
PAO1 Ortholog Locus:PA5453
Sequence Length:972
Protein Length:323
Start: 6417000
Stop: 6416029
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08838.1|AE004958_8 (AE004958) GDP-mannose 4,6-dehydratase [Pseudomonas aeruginosa PAO1]
Identities = 323/323 (100%), Positives = 323/323 (100%)
Sequence:
ATGACAAGAAGTGCACTGGTAACTGGGATCACCGGTCAGGACGGAGCGTACCTGGCCAAGCTGCTGCTGGAG
AAGGGCTACCGGGTCCACGGCCTGGTGGCGCGGCGCAGCAGCGACACGCGCTGGCGCCTGCGTGAACTGGGG
ATCGAAGGCGATATCCAGTACGAGGACGGCGACATGGCCGATGCCTGTTCGGTGCAGCGCGCGGTGATCAAG
GCGCAGCCGCAGGAGGTCTACAACCTGGCGGCACAGAGCTTCGTCGGGGCTTCCTGGAACCAGCCGGTGACC
ACCGGCGTCGTCGACGGCCTGGGCGTGACCCACCTGCTCGAGGCGATCCGCCAGTTCAGCCCGGAAACGCGC
TTCTACCAGGCCTCCACCAGCGAGATGTTCGGCCTGATCCAGGCCGAGCGCCAGGACGAGAACACGCCGTTC
TACCCGCGCAGCCCCTACGGCGTGGCCAAGCTCTATGGCCACTGGATCACCGTCAACTATCGCGAGAGCTTC
GGCCTGCACGCCTCCAGCGGCATCCTGTTCAACCACGAATCGCCGCTGCGCGGCATCGAGTTCGTCACGCGC
AAGGTTACCGACGCGGTGGCCCGCATCAAGCTCGGCAAGCAGCAGGAATTGCGCCTGGGCAACGTCGACGCC
AAGCGCGACTGGGGCTTTGCCGGGGACTACGTCGAAGCCATGTGGCTGATGTTGCAGCAGGACAAGGCCGAC
GACTACGTGGTGGCCACCGGTGTCACTACCACCGTGCGCGACATGTGCCAGATCGCTTTCGAGCATGTGGGC
CTGGACTACCGCGACTTCCTCAAGATCGACCCGGCGTTCTTCCGGCCCGCCGAGGTCGACGTGCTGCTGGGT
AATCCGGCCAAGGCCCAGCGTGTGCTCGGCTGGAAGCCCAGGACCAGCCTGGACGAGCTGATCCGGATGATG
GTCGAGGCGGACCTGCGACGCGTTTCCCGGGAGTAA
Translation:
MTRSALVTGITGQDGAYLAKLLLEKGYRVHGLVARRSSDTRWRLRELGIEGDIQYEDGDMADACSVQRAVIK
AQPQEVYNLAAQSFVGASWNQPVTTGVVDGLGVTHLLEAIRQFSPETRFYQASTSEMFGLIQAERQDENTPF
YPRSPYGVAKLYGHWITVNYRESFGLHASSGILFNHESPLRGIEFVTRKVTDAVARIKLGKQQELRLGNVDA
KRDWGFAGDYVEAMWLMLQQDKADDYVVATGVTTTVRDMCQIAFEHVGLDYRDFLKIDPAFFRPAEVDVLLG
NPAKAQRVLGWKPRTSLDELIRMMVEADLRRVSRE*
AnnotationID:2159GeneID:2151
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 21:09:23
Gene Name:gmd
Confidence Code:1
GeneProduct:GDP-D-mannose dehydratase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1089,pfam01370,COG0451
Secondary Functional Category(ies):cell envelope biogenesis, outer membrane
EC Number:4.2.1.47
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAK22994.1| (AE005779) GDP-mannose 4,6-dehydratase [Caulobacter crescentus
           CB15]
          Length = 325

 Score =  441 bits (1135), Expect = e-123
 Identities = 217/324 (66%), Positives = 263/324 (81%), Gaps = 2/324 (0%)

>gb|AAC38668.1| (AF062345) putative GDP-mannose-4,6-dehydratase; LpsA [Caulobacter
           crescentus] [Caulobacter vibrioides]
          Length = 325

 Score =  441 bits (1135), Expect = e-123
 Identities = 217/324 (66%), Positives = 263/324 (81%), Gaps = 2/324 (0%)

>gb|AAG35360.1|AF317224_2 (AF317224) GDP-mannose 4,6-dehydratase [Aneurinibacillus
           thermoaerophilus]
          Length = 323

 Score =  403 bits (1036), Expect = e-112
 Identities = 199/322 (61%), Positives = 244/322 (75%), Gaps = 3/322 (0%)








 
Structural Features:
COG1089, Gmd, GDP-D-mannose dehydratase 
[Cell envelope biogenesis, outer membrane]
CD-Length = 345 residues, 100.0% aligned
Score =  512 bits (1321), Expect = 1e-146
Identities = 201/345 (58%), Positives = 243/345 (70%), Gaps = 22/345 (6%)

pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. 
CD-Length = 310 residues,  97.7% aligned
Score =  127 bits (321), Expect = 1e-30
Identities = 86/312 (27%), Positives = 136/312 (43%), Gaps = 12/312 (3%)

COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases 
[Cell envelope biogenesis, outer membrane / 
Carbohydrate transport and metabolism]
CD-Length = 314 residues,  98.1% aligned
Score =  125 bits (314), Expect = 7e-30
Identities = 83/317 (26%), Positives = 136/317 (42%), Gaps = 12/317 (3%)







   
Genomic Context:






   
Comment:


















    ReferenceID:4305




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21451




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34643




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2151_cdd.html


    		




 
URL:

















    ReferenceID:35620




  
Author/Investigator(s):
        Sturla L, Bisso A, Zanardi D, Benatti U, De Flora A, Tonetti M.





  
Title:
        Expression, purification and characterization of GDP-D-mannose 4,6-dehydratase from Escherichia coli.




  
PubMed:
        9257704


MedLine:
        




    
Source:
FEBS Lett. 1997 Jul 21;412(1):126-30.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9257704

















    ReferenceID:35622




  
Author/Investigator(s):
        Godfroid F, Cloeckaert A, Taminiau B, Danese I, Tibor A, de Bolle X, Mertens P, Letesson JJ





  
Title:
        Genetic organisation of the lipopolysaccharide O-antigen biosynthesis region of brucella melitensis 16M (wbk).




  
PubMed:
        11081580


MedLine:
        




    
Source:
Res Microbiol. 2000 Oct;151(8):655-68.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11081580









           
Homologs By Global Alignment 

           

       



     
Gene ID:2151
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3685
                           PA5453_tr
                           translation of PA5453
                           323
                           99.99
                           99.99
                           0
                           1675.0
     

     
     
113861
                           gb|AAG08838.1|AE004958_8
                           (AE004958) GDP-mannose 4,6-dehydratase [Pseudomonas aeruginosa PAO1]
                           323
                           99.99
                           99.99
                           0
                           1675.0
     

     
     
113862
                           gb|AAC44117.1|
                           (U18320) GCA [Pseudomonas aeruginosa]
                           323
                           98.45
                           98.76
                           0
                           1651.0
     

     
     
113863
                           gb|AAK22994.1|
                           (AE005779) GDP-mannose 4,6-dehydratase [Caulobacter crescentus CB15]
                           328
                           66.46
                           80.48
                           8
                           1140.0
     

     
     
113864
                           gb|AAC38668.1|
                           (AF062345) putative GDP-mannose-4,6-dehydratase; LpsA [Caulobacter crescentus] [Caulobacter vibrioides]
                           328
                           66.46
                           80.48
                           8
                           1140.0
     

     






      

          
GC ORFID: 45153How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5453Glimmer Score: 

          
Start: 5680689Stop: 5679718

          
Length: 972


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA5453 translation of PA5453Homolog Bit Score 649.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene5112 (ORF: BLASTX 377.0), t_PA5453 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACAAGAAGTGCACTGGTAACTGGGATCACCGGTCAGGACGGAGCGTACCTGGCCAAGCTGCTGCTGGAG 
AAGGGCTACCGGGTCCACGGCCTGGTGGCGCGGCGCAGCAGCGACACGCGCTGGCGCCTGCGTGAACTGGGG 
ATCGAAGGCGATATCCAGTACGAGGACGGCGACATGGCCGATGCCTGTTCGGTGCAGCGCGCGGTGATCAAG 
GCGCAGCCGCAGGAGGTCTACAACCTGGCGGCACAGAGCTTCGTCGGGGCTTCCTGGAACCAGCCGGTGACC 
ACCGGCGTCGTCGACGGCCTGGGCGTGACCCACCTGCTCGAGGCGATCCGCCAGTTCAGCCCGGAAACGCGC 
TTCTACCAGGCCTCCACCAGCGAGATGTTCGGCCTGATCCAGGCCGAGCGCCAGGACGAGAACACGCCGTTC 
TACCCGCGCAGCCCCTACGGCGTGGCCAAGCTCTATGGCCACTGGATCACCGTCAACTATCGCGAGAGCTTC 
GGCCTGCACGCCTCCAGCGGCATCCTGTTCAACCACGAATCGCCGCTGCGCGGCATCGAGTTCGTCACGCGC 
AAGGTTACCGACGCGGTGGCCCGCATCAAGCTCGGCAAGCAGCAGGAATTGCGCCTGGGCAACGTCGACGCC 
AAGCGCGACTGGGGCTTTGCCGGGGACTACGTCGAAGCCATGTGGCTGATGTTGCAGCAGGACAAGGCCGAC 
GACTACGTGGTGGCCACCGGTGTCACTACCACCGTGCGCGACATGTGCCAGATCGCTTTCGAGCATGTGGGC 
CTGGACTACCGCGACTTCCTCAAGATCGACCCGGCGTTCTTCCGGCCCGCCGAGGTCGACGTGCTGCTGGGT 
AATCCGGCCAAGGCCCAGCGTGTGCTCGGCTGGAAGCCCAGGACCAGCCTGGACGAGCTGATCCGGATGATG 
GTCGAGGCGGACCTGCGACGCGTTTCCCGGGAGTAA