ViewGene
Locus Name:
GeneID:
Location:

GeneID:3039
TrivialName: PA14_62940
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_62940
PAO1 Ortholog Locus:PA4759
Sequence Length:807
Protein Length:268
Start: 5617821
Stop: 5617015
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08145.1|AE004889_8 (AE004889) dihydrodipicolinate reductase [Pseudomonas aeruginosa PAO1]
Identities = 268/268 (100%), Positives = 268/268 (100%)
Sequence:
ATGCGACGTATAGCCGTAGTGGGCGCCGCCGGGCGCATGGGCAAGAACCTGATCGAGGCCGTTCAGCAGACC
GGCGGTGCCGCCGGGCTGACGGCGGCGGTGGATCGTCCGGATAGCACCCTGGTGGGGGCGGACGCCGGCGAG
CTGGCCGGTCTCGGCCGGATCGGCGTGCCGCTGTCCGGGGACCTGGGCAAGGTCTGCGAGGAGTTCGACGTC
CTGATCGACTTCACCCATCCCTCCGTAACCCTGAAGAACATCGAGCAGTGCCGCAAGGCGCGCCGCGCGATG
GTCATCGGCACCACCGGCTTCAGCGCCGACGAGAAGCTGCTGCTGGCCGAAGCGGCGAAGGATATCCCGATC
GTCTTCGCTGCCAACTTCAGCGTCGGCGTGAACCTTTGCCTGAAGCTTCTGGATACCGCGGCACGGGTGCTG
GGCGACGAAGTGGATATCGAGATCATCGAGGCCCATCACCGGCACAAGGTCGATGCACCGTCCGGCACCGCC
TTGCGCATGGGCGAGGTGGTAGCCCAGGCGCTCGGCCGGGACCTCCAGGAAGTGGCGGTCTACGGACGTGAG
GGGCAGACCGGCGCGCGGGCGCGGGAAACCATCGGCTTCGCCACCGTGCGCGCCGGCGACGTGGTGGGCGAC
CACACCGTGCTGTTCGCCGCCGAGGGCGAGCGCGTGGAGATCACCCACAAGGCTTCCAGCCGCATGACCTTT
GCCCGTGGCGCGGTGCGTGCGGCGCTGTGGCTGGAGGGTAAGGAGAACGGCCTGTACGACATGCAGGATGTG
CTCGGCCTACGCTGA
Translation:
MRRIAVVGAAGRMGKNLIEAVQQTGGAAGLTAAVDRPDSTLVGADAGELAGLGRIGVPLSGDLGKVCEEFDV
LIDFTHPSVTLKNIEQCRKARRAMVIGTTGFSADEKLLLAEAAKDIPIVFAANFSVGVNLCLKLLDTAARVL
GDEVDIEIIEAHHRHKVDAPSGTALRMGEVVAQALGRDLQEVAVYGREGQTGARARETIGFATVRAGDVVGD
HTVLFAAEGERVEITHKASSRMTFARGAVRAALWLEGKENGLYDMQDVLGLR*
AnnotationID:3047GeneID:3039
AnnotatorUID: danlee
Modification Date/Time: 2006-01-31 15:03:34
Gene Name:dapB
Confidence Code:2
GeneProduct:dihydrodipicolinate reductase
Cell Localization:(1) Cytoplasmic
Synonyms:
Cell Localization Confidence Code:3
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0289,pfam05173,pfam01113
Secondary Functional Category(ies):
EC Number:1.3.1.26
Status:ACTIVE
Pathway:
Lysine biosynthesis
Homology:
>gb|AAQ22348.1| (AY344804) dihydrodipicolinate reductase [Pseudomonas stutzeri A15]
          Length = 268

 Score =  455 bits (1171), Expect = e-127
 Identities = 230/267 (86%), Positives = 250/267 (93%)

>gb|AAB41563.1| (U47017) dihydrodipicolinate reductase [Pseudomonas syringae pv.
           tabaci]
          Length = 267

 Score =  455 bits (1170), Expect = e-127
 Identities = 233/267 (87%), Positives = 248/267 (92%), Gaps = 1/267 (0%)

>gb|AAM87242.1|AE013973_1 (AE013973) dihydrodipicolinate reductase [Yersinia pestis KIM]
          Length = 273

 Score =  334 bits (857), Expect = 3e-91
 Identities = 172/265 (64%), Positives = 209/265 (78%), Gaps = 1/265 (0%)
Structural Features:
COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]
CD-Length = 266 residues,  99.6% aligned
Score =  347 bits (892), Expect = 7e-97
Identities = 156/267 (58%), Positives = 198/267 (74%), Gaps = 2/267 (0%)

pfam05173, DapB_C, Dihydrodipicolinate reductase, C-terminus. 
CD-Length = 137 residues, 100.0% aligned
Score =  187 bits (476), Expect = 1e-48
Identities = 80/138 (57%), Positives = 101/138 (73%), Gaps = 1/138 (0%)

pfam01113, DapB_N, Dihydrodipicolinate reductase, N-terminus.
CD-Length = 118 residues,  99.2% aligned
Score =  118 bits (297), Expect = 7e-28
Identities = 57/124 (45%), Positives = 75/124 (60%), Gaps = 7/124 (5%)
Genomic Context:






   
Comment:


















    ReferenceID:6081




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23223




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36560




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3039_cdd.html


    		




 
URL:

















    ReferenceID:36620




  
Author/Investigator(s):
        Liao X, Charlebois I, Ouellet C, Morency MJ, Dewar K, Lightfoot J, Foster J, Siehnel R, Schweizer H, Lam JS, Hancock RE, Levesque RC.





  
Title:
        Physical mapping of 32 genetic markers on the Pseudomonas aeruginosa PAO1 chromosome.




  
PubMed:
        8581173


MedLine:
        




    
Source:
Microbiology. 1996 Jan;142 ( Pt 1):79-86.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8581173

















    ReferenceID:36621




  
Author/Investigator(s):
        Bouvier J, Richaud C, Richaud F, Patte JC, Stragier P.





  
Title:
        Nucleotide sequence and expression of the Escherichia coli dapB gene.




  
PubMed:
        6094578


MedLine:
        




    
Source:
J Biol Chem. 1984 Dec 10;259(23):14829-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6094578

















    ReferenceID:36622




  
Author/Investigator(s):
        Liu L, Shaw PD.





  
Title:
        Characterization of dapB, a gene required by Pseudomonas syringae pv. tabaci BR2.024 for lysine and tabtoxinine-beta-lactam biosynthesis.




  
PubMed:
        8990304


MedLine:
        




    
Source:
J Bacteriol. 1997 Jan;179(2):507-13.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8990304









           
Homologs By Global Alignment 

           

       



     
Gene ID:3039
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4905
                           PA4759_tr
                           translation of PA4759
                           268
                           99.99
                           99.99
                           0
                           1339.0
     

     
     
138904
                           gb|AAG08145.1|AE004889_8
                           (AE004889) dihydrodipicolinate reductase [Pseudomonas aeruginosa PAO1]
                           268
                           99.99
                           99.99
                           0
                           1339.0
     

     
     
138906
                           gb|AAB41563.1|
                           (U47017) dihydrodipicolinate reductase [Pseudomonas syringae pv. tabaci]
                           268
                           86.94
                           92.53
                           1
                           1172.0
     

     
     
138907
                           gb|AAO57951.1|
                           (AE016872) dihydrodipicolinate reductase [Pseudomonas syringae pv. tomato str. DC3000]
                           268
                           86.94
                           92.16
                           1
                           1165.0
     

     
     
138908
                           gb|AAN70297.1|AE016670_7
                           (AE016791) dihydrodipicolinate reductase [Pseudomonas putida KT2440]
                           268
                           86.56
                           92.16
                           1
                           1146.0
     

     






      

          
GC ORFID: 46041How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4759Glimmer Score: 

          
Start: 4881501Stop: 4880695

          
Length: 807


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4759 translation of PA4759Homolog Bit Score 520.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5479 (ORF: BLASTX 454.0), t_PA4759 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGACGTATAGCCGTAGTGGGCGCCGCCGGGCGCATGGGCAAGAACCTGATCGAGGCCGTTCAGCAGACC 
GGCGGTGCCGCCGGGCTGACGGCGGCGGTGGATCGTCCGGATAGCACCCTGGTGGGGGCGGACGCCGGCGAG 
CTGGCCGGTCTCGGCCGGATCGGCGTGCCGCTGTCCGGGGACCTGGGCAAGGTCTGCGAGGAGTTCGACGTC 
CTGATCGACTTCACCCATCCCTCCGTAACCCTGAAGAACATCGAGCAGTGCCGCAAGGCGCGCCGCGCGATG 
GTCATCGGCACCACCGGCTTCAGCGCCGACGAGAAGCTGCTGCTGGCCGAAGCGGCGAAGGATATCCCGATC 
GTCTTCGCTGCCAACTTCAGCGTCGGCGTGAACCTTTGCCTGAAGCTTCTGGATACCGCGGCACGGGTGCTG 
GGCGACGAAGTGGATATCGAGATCATCGAGGCCCATCACCGGCACAAGGTCGATGCACCGTCCGGCACCGCC 
TTGCGCATGGGCGAGGTGGTAGCCCAGGCGCTCGGCCGGGACCTCCAGGAAGTGGCGGTCTACGGACGTGAG 
GGGCAGACCGGCGCGCGGGCGCGGGAAACCATCGGCTTCGCCACCGTGCGCGCCGGCGACGTGGTGGGCGAC 
CACACCGTGCTGTTCGCCGCCGAGGGCGAGCGCGTGGAGATCACCCACAAGGCTTCCAGCCGCATGACCTTT 
GCCCGTGGCGCGGTGCGTGCGGCGCTGTGGCTGGAGGGTAAGGAGAACGGCCTGTACGACATGCAGGATGTG 
CTCGGCCTACGCTGA