ViewGene
Locus Name:
GeneID:
Location:

GeneID:1398
TrivialName: PA14_69670
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69670
PAO1 Ortholog Locus:PA5277
Sequence Length:1248
Protein Length:415
Start: 6214687
Stop: 6215934
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08662.1|AE004940_6 (AE004940) diaminopimelate decarboxylase [Pseudomonas aeruginosa PAO1]
Identities = 413/415 (99%), Positives = 413/415 (99%)
Sequence:
ATGGACACATTCAGTTACCGCGACGGTGAGCTGTTCGCGGAAGGGGTGGCGCTTTCCCGCATCGCCGAGCGT
TTCGGCACGCCCACCTACGTCTACTCCCGCGCGCACATCGAGGCCCAGTACCGCGCCTATGCCGACGCCCTC
GCCGGCATGCCGCACCTGGTCTGCTTCGCGGTCAAGGCCAACTCCAACCTCGGGGTGCTGAATGTGCTGGCG
CGCCTCGGCGCCGGTTTCGACATCGTTTCCCGCGGTGAGCTGGAGCGTGTCCTGGCCGCCGGCGGCGATCCG
GCCAAGGTGGTGTTCTCCGGCGTCGGCAAGACCCGCGACGACATGCGCCGCGCCCTGGAAGTCGGTGTGCAC
TGCTTCAACGTCGAGTCCGGCGAAGAGCTGGAGCGCCTGCAACGGGTGGCCGCGGAACTCGGCGTGAAAGCG
CCGGTGTCGCTGCGGGTCAACCCGGACGTGGATGCCCAGACCCACCCCTATATCTCCACCGGCCTGAAAGAG
AACAAGTTCGGCATCGCCATCGACGAGGCCGAGGCGGTCTACGCCCGCGCCGCCGAGCTTGACCACCTGGAG
GTGATCGGCGTCGACTGCCACATCGGCTCGCAATTGACCCAGCTGGAGCCCTTCCTCGACGCCCTCGAGCGC
CTGCTCGGGCTGGTCGACCGCCTGGCCGGCAAAGGCATCGGCATTCGCCACCTGGACCTCGGCGGCGGCCTC
GGGGTGCGCTACCGCGACGAACAGCCGCCGCTGGCCGGCGACTACATCCGCGCCATCCGCGAGCGCCTGCAT
GGCCGCGACCTGACCCTGGTGTTCGAGCCGGGCCGGTCCATCGTCGCTAACGCCGGCGTGCTGCTGACCCGC
GTCGAGTACCTCAAGCACACCGAGCACAAGGATTTCGCCATCGTCGACGCGGCGATGAACGACCTGATCCGC
CCGGCTCTCTACCAGGCCTGGATGGACGTGCAGGCGGTACGCCCGCGCGATGCCGTGCCGCGCCGCTACGAC
CTGGTCGGGCCGATCTGCGAGACCGGCGACTTCCTCGCCAAGGATCGCGACCTGGCGCTCGCCGAAGGCGAC
CTCCTGGCGGTGCGCTCGGCCGGCGCCTACGGCTTCGTCATGAGCTCGAACTACAACACCCGCGGTCGCGCC
GCCGAGGTGCTGGTGGATGGCGAGCAGACCCACGAGGTCCGTCGCCGCGAGACCGTCCAAGAGCTCTACGCC
GGCGAAAGCCTGCTGCCGCAGTGA
Translation:
MDTFSYRDGELFAEGVALSRIAERFGTPTYVYSRAHIEAQYRAYADALAGMPHLVCFAVKANSNLGVLNVLA
RLGAGFDIVSRGELERVLAAGGDPAKVVFSGVGKTRDDMRRALEVGVHCFNVESGEELERLQRVAAELGVKA
PVSLRVNPDVDAQTHPYISTGLKENKFGIAIDEAEAVYARAAELDHLEVIGVDCHIGSQLTQLEPFLDALER
LLGLVDRLAGKGIGIRHLDLGGGLGVRYRDEQPPLAGDYIRAIRERLHGRDLTLVFEPGRSIVANAGVLLTR
VEYLKHTEHKDFAIVDAAMNDLIRPALYQAWMDVQAVRPRDAVPRRYDLVGPICETGDFLAKDRDLALAEGD
LLAVRSAGAYGFVMSSNYNTRGRAAEVLVDGEQTHEVRRRETVQELYAGESLLPQ*
AnnotationID:1407GeneID:1398
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 14:02:36
Gene Name:lysA
Confidence Code:1
GeneProduct:diaminopimelate decarboxylase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0019,pfam02784
Secondary Functional Category(ies):
EC Number:4.1.1.20
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53771.1| (AE016856) diaminopimelate decarboxylase [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 415

 Score =  703 bits (1815), Expect = 0.0
 Identities = 354/415 (85%), Positives = 381/415 (91%)

>gb|AAN70792.1|AE016723_4 (AE016793) diaminopimelate decarboxylase [Pseudomonas putida
           KT2440]
          Length = 415

 Score =  680 bits (1754), Expect = 0.0
 Identities = 347/415 (83%), Positives = 371/415 (89%)

>gb|AAO09601.1|AE016800_206 (AE016800) Diaminopimelate decarboxylase [Vibrio vulnificus CMCP6]
          Length = 417

 Score =  571 bits (1471), Expect = e-162
 Identities = 288/417 (69%), Positives = 342/417 (82%), Gaps = 2/417 (0%)






 
Structural Features:
COG0019, LysA, Diaminopimelate decarboxylase [Amino acid transport and metabolism]
CD-Length = 394 residues, 100.0% aligned
Score =  442 bits (1137), Expect = 5e-125
Identities = 198/396 (50%), Positives = 254/396 (64%), Gaps = 9/396 (2%)

pfam02784, Orn_Arg_deC_N, Pyridoxal-dependent decarboxylase, pyridoxal binding domain.
CD-Length = 246 residues, 100.0% aligned
Score =  250 bits (639), Expect = 3e-67
Identities = 109/253 (43%), Positives = 144/253 (56%), Gaps = 11/253 (4%)







   
Genomic Context:






   
Comment:


















    ReferenceID:2799




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19944




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34829




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1398_cdd.html


    		




 
URL:

















    ReferenceID:35723




  
Author/Investigator(s):
        Martin C, Cami B, Yeh P, Stragier P, Parsot C, Patte JC.





  
Title:
        Pseudomonas aeruginosa diaminopimelate decarboxylase: evolutionary relationship with other amino acid decarboxylases.




  
PubMed:
        3143046


MedLine:
        




    
Source:
Mol Biol Evol. 1988 Sep;5(5):549-59.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3143046









           
Homologs By Global Alignment 

           

       



     
Gene ID:1398
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2546
                           PA5277_tr
                           translation of PA5277
                           415
                           99.51
                           99.51
                           0
                           2104.0
     

     
     
80280
                           gb|AAG08662.1|AE004940_6
                           (AE004940) diaminopimelate decarboxylase [Pseudomonas aeruginosa PAO1]
                           415
                           99.51
                           99.51
                           0
                           2104.0
     

     
     
80281
                           gb|AAO53771.1|
                           (AE016856) diaminopimelate decarboxylase [Pseudomonas syringae pv. tomato str. DC3000]
                           415
                           85.30
                           91.80
                           0
                           1815.0
     

     
     
80282
                           emb|CAA72943.1|
                           (Y12268) LysA protein [Pseudomonas fluorescens]
                           416
                           83.65
                           90.14
                           1
                           1781.0
     

     
     
80283
                           gb|AAN70792.1|AE016723_4
                           (AE016793) diaminopimelate decarboxylase [Pseudomonas putida KT2440]
                           415
                           83.61
                           89.39
                           0
                           1754.0
     

     






      

          
GC ORFID: 44400How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5277Glimmer Score: 

          
Start: 5478374Stop: 5479621

          
Length: 1248


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5277 translation of PA5277Homolog Bit Score 815.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3114 (ORF: BLASTX 707.0), t_PA5277 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGACACATTCAGTTACCGCGACGGTGAGCTGTTCGCGGAAGGGGTGGCGCTTTCCCGCATCGCCGAGCGT 
TTCGGCACGCCCACCTACGTCTACTCCCGCGCGCACATCGAGGCCCAGTACCGCGCCTATGCCGACGCCCTC 
GCCGGCATGCCGCACCTGGTCTGCTTCGCGGTCAAGGCCAACTCCAACCTCGGGGTGCTGAATGTGCTGGCG 
CGCCTCGGCGCCGGTTTCGACATCGTTTCCCGCGGTGAGCTGGAGCGTGTCCTGGCCGCCGGCGGCGATCCG 
GCCAAGGTGGTGTTCTCCGGCGTCGGCAAGACCCGCGACGACATGCGCCGCGCCCTGGAAGTCGGTGTGCAC 
TGCTTCAACGTCGAGTCCGGCGAAGAGCTGGAGCGCCTGCAACGGGTGGCCGCGGAACTCGGCGTGAAAGCG 
CCGGTGTCGCTGCGGGTCAACCCGGACGTGGATGCCCAGACCCACCCCTATATCTCCACCGGCCTGAAAGAG 
AACAAGTTCGGCATCGCCATCGACGAGGCCGAGGCGGTCTACGCCCGCGCCGCCGAGCTTGACCACCTGGAG 
GTGATCGGCGTCGACTGCCACATCGGCTCGCAATTGACCCAGCTGGAGCCCTTCCTCGACGCCCTCGAGCGC 
CTGCTCGGGCTGGTCGACCGCCTGGCCGGCAAAGGCATCGGCATTCGCCACCTGGACCTCGGCGGCGGCCTC 
GGGGTGCGCTACCGCGACGAACAGCCGCCGCTGGCCGGCGACTACATCCGCGCCATCCGCGAGCGCCTGCAT 
GGCCGCGACCTGACCCTGGTGTTCGAGCCGGGCCGGTCCATCGTCGCTAACGCCGGCGTGCTGCTGACCCGC 
GTCGAGTACCTCAAGCACACCGAGCACAAGGATTTCGCCATCGTCGACGCGGCGATGAACGACCTGATCCGC 
CCGGCTCTCTACCAGGCCTGGATGGACGTGCAGGCGGTACGCCCGCGCGATGCCGTGCCGCGCCGCTACGAC 
CTGGTCGGGCCGATCTGCGAGACCGGCGACTTCCTCGCCAAGGATCGCGACCTGGCGCTCGCCGAAGGCGAC 
CTCCTGGCGGTGCGCTCGGCCGGCGCCTACGGCTTCGTCATGAGCTCGAACTACAACACCCGCGGTCGCGCC 
GCCGAGGTGCTGGTGGATGGCGAGCAGACCCACGAGGTCCGTCGCCGCGAGACCGTCCAAGAGCTCTACGCC 
GGCGAAAGCCTGCTGCCGCAGTGA