ViewGene
Locus Name:
GeneID:
Location:

GeneID:3418
TrivialName: PA14_17340
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_17340
PAO1 Ortholog Locus:PA3633
Sequence Length:705
Protein Length:234
Start: 1489702
Stop: 1490406
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07021.1|AE004783_6 (AE004783) 4-diphosphocytidyl-2-C-methylerythritol synthase [Pseudomonas aeruginosa PAO1]
Identities = 230/234 (98%), Positives = 232/234 (99%)
Sequence:
ATGACGACTTCCGACCTTCCCGCCTTCTGGACGGTGATCCCCGCCGCCGGCGTGGGTTCGCGCATGCGCGCC
GACCGCCCGAAGCAATATCTCGATCTTGCCGGCCGTACCGTGATCGAGCGCACCCTCGATTGTTTCCTCGAG
CACCCGATGCTCAGGGGCCTGGTGGTCTGCCTGGCCGAAGACGATCCCTACTGGCCCGGGCTGGACTGCGCC
GCCAGCCGGCATGTGCAGCGCGCCGCCGGGGGCGTCGAACGCGCCGACTCAGTGTTGAGCGGCTTGCTGCGC
CTGCTGGAGCTGGGGGCACAGGCCGACGATTGGGTGCTGGTGCATGACGCTGCGCGACCGAACCTGACCCGC
GGCGACCTCGACCGCCTGCTCGAAGAACTCGCCGAAGATCCGGTCGGCGGGCTGCTGGCGGTGCCGGCGAGG
GACACCCTCAAGCGTGCCGACCGCGACGGCCGGGTCAGCGAAACCATCGACCGCTCGGTGGTCTGGCTGGCC
TATACGCCACAGATGTTCCGCCTCGGCGCCCTGCACCGGGCACTGGCCGATGCGCTGGTGGCCGGCGTGGCG
ATCACCGACGAGGCTTCGGCGATGGAGTGGGCCGGCTATGCGCCGAAACTGGTGGAAGGGCGCGCCGACAAC
CTGAAGATCACCACCCCGGAAGACCTACTGCGCCTGCAGCGCAGTTTTCCGCACTGA
Translation:
MTTSDLPAFWTVIPAAGVGSRMRADRPKQYLDLAGRTVIERTLDCFLEHPMLRGLVVCLAEDDPYWPGLDCA
ASRHVQRAAGGVERADSVLSGLLRLLELGAQADDWVLVHDAARPNLTRGDLDRLLEELAEDPVGGLLAVPAR
DTLKRADRDGRVSETIDRSVVWLAYTPQMFRLGALHRALADALVAGVAITDEASAMEWAGYAPKLVEGRADN
LKITTPEDLLRLQRSFPH*
AnnotationID:3426GeneID:3418
AnnotatorUID: diggins
Modification Date/Time: 2005-06-19 19:07:06
Gene Name:ispD
Confidence Code:2
GeneProduct:4-diphosphocytidyl-2-methyl-D-erithritol synthase
Cell Localization:()
Synonyms:ygbP
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:COG1211
Secondary Functional Category(ies):
EC Number:2.7.7.60
Status:ACTIVE
Pathway:
Isoprenoid biosynthesis; 
Isopentenyl-PP biosynthesis via DXP pathway; 
Isopentenyl-PP from 1-deoxy-D-xylulose 5-phosphate: step 2.
Homology:
>gb|AAN67235.1|AE016350_8 (AE016780) 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
           [Pseudomonas putida KT2440]
          Length = 235

 Score =  335 bits (858), Expect = 2e-91
 Identities = 161/220 (73%), Positives = 186/220 (84%)

>gb|AAF93696.1| (AE004139) CDP-ribitol pyrophosphorylase-related protein [Vibrio
           cholerae]
          Length = 232

 Score =  216 bits (551), Expect = 7e-56
 Identities = 113/214 (52%), Positives = 143/214 (66%), Gaps = 2/214 (0%)
Structural Features:
COG1211, IspD, 4-diphosphocytidyl-2-methyl-D-erithritol synthase 
[Lipid metabolism]
CD-Length = 230 residues,  97.4% aligned
Score =  247 bits (631), Expect = 2e-66
Identities = 114/228 (50%), Positives = 138/228 (60%), Gaps = 6/228 (2%)
Genomic Context:






   
Comment:


















    ReferenceID:6839




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23981




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31910




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3418_cdd.html


    		




 
URL:

















    ReferenceID:34186




  
Author/Investigator(s):
        Freiberg C, Wieland B, Spaltmann F, Ehlert K, Brotz H, Labischinski H.





  
Title:
        Identification of novel essential Escherichia coli genes conserved among pathogenic bacteria.




  
PubMed:
        11361082


MedLine:
        




    
Source:
J Mol Microbiol Biotechnol. 2001 Jul;3(3):483-9






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11361082









           
Homologs By Global Alignment 

           

       



     
Gene ID:3418
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5470
                           PA3633_tr
                           translation of PA3633
                           234
                           98.29
                           99.14
                           0
                           1192.0
     

     
     
153033
                           gb|AAG07021.1|AE004783_6
                           (AE004783) 4-diphosphocytidyl-2-C-methylerythritol synthase [Pseudomonas aeruginosa PAO1]
                           234
                           98.29
                           99.14
                           0
                           1192.0
     

     
     
153034
                           gb|AAN67235.1|AE016350_8
                           (AE016780) 4-diphosphocytidyl-2C-methyl-D-erythritol synthase [Pseudomonas putida KT2440]
                           236
                           68.64
                           80.50
                           3
                           850.0
     

     
     
153035
                           gb|AAO55076.1|
                           (AE016861) 4-diphosphocytidyl-2C-methyl-D-erythritol synthase [Pseudomonas syringae pv. tomato str. DC3000]
                           237
                           67.51
                           79.32
                           4
                           830.0
     

     
     
153036
                           dbj|BAC60822.1|
                           (AP005081) 4-diphosphocytidyl-2C-methyl-D-erythritol synthase [Vibrio parahaemolyticus]
                           241
                           51.45
                           66.39
                           14
                           601.0
     

     






      

          
GC ORFID: 46420How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3633Glimmer Score: 

          
Start: 3464235Stop: 3463531

          
Length: 705


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3633 translation of PA3633Homolog Bit Score 463.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4643 (ORF: BLASTX 337.0), t_PA3633 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACGACTTCCGACCTTCCCGCCTTCTGGACGGTGATCCCCGCCGCCGGCGTGGGTTCGCGCATGCGCGCC 
GACCGCCCGAAGCAATATCTCGATCTTGCCGGCCGTACCGTGATCGAGCGCACCCTCGATTGTTTCCTCGAG 
CACCCGATGCTCAGGGGCCTGGTGGTCTGCCTGGCCGAAGACGATCCCTACTGGCCCGGGCTGGACTGCGCC 
GCCAGCCGGCATGTGCAGCGCGCCGCCGGGGGCGTCGAACGCGCCGACTCAGTGTTGAGCGGCTTGCTGCGC 
CTGCTGGAGCTGGGGGCACAGGCCGACGATTGGGTGCTGGTGCATGACGCTGCGCGACCGAACCTGACCCGC 
GGCGACCTCGACCGCCTGCTCGAAGAACTCGCCGAAGATCCGGTCGGCGGGCTGCTGGCGGTGCCGGCGAGG 
GACACCCTCAAGCGTGCCGACCGCGACGGCCGGGTCAGCGAAACCATCGACCGCTCGGTGGTCTGGCTGGCC 
TATACGCCACAGATGTTCCGCCTCGGCGCCCTGCACCGGGCACTGGCCGATGCGCTGGTGGCCGGCGTGGCG 
ATCACCGACGAGGCTTCGGCGATGGAGTGGGCCGGCTATGCGCCGAAACTGGTGGAAGGGCGCGCCGACAAC 
CTGAAGATCACCACCCCGGAAGACCTACTGCGCCTGCAGCGCAGTTTTCCGCACTGA