ViewGene
Locus Name:
GeneID:
Location:

GeneID:2282
TrivialName: PA14_57320
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_57320
PAO1 Ortholog Locus:PA4410
Sequence Length:960
Protein Length:319
Start: 5107194
Stop: 5106235
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07798.1|AE004856_9 (AE004856) D-alanine--D-alanine ligase [Pseudomonas aeruginosa PAO1]
Identities = 317/319 (99%), Positives = 318/319 (99%)
Sequence:
ATGAACCTTTGCCTCGATAGCCTGCTGAACGGCACCCAGGATCCCAAGGCGTTCGGCCGTGTCGCCGTGCTG
TTCGGTGGCAAGAGCGCCGAGCGCGAGGTGTCGCTGAAGTCCGGCGCGATGGTCCTGCAATCCCTGCTGGCC
GCCGGGGTCGATGCCTTCGGCATCGATGTCGGCGAAGACCTGCTGCAACGCCTGGTCGAGGAGAAGATCGAC
CGCGCCTTCATCATTCTCCACGGTCGTGGCGGCGAGGATGGCAGCATGCAGGGCCTGCTCGAGTGCGCGGGC
ATTCCCTACACCGGCAGCGGCGTGCTGGCCTCGGCGCTGGCGATGGACAAGCTGCGGACCAAGCGGGTCTGG
CTCAGCCTCGGCCTGCCGACCCCGGACTACGCGGTGCTGGCCAGCGAGGATGACTGCCGCGACGCGGCGCAG
CGACTGGGTTTCCCGCTGATCGTCAAGCCGGCTCACGAAGGCTCGAGCATCGGCATGGCCAAGGTCGGCGGG
CTCGACGAATTGATCGCGGCGTGGCGCGAAGCGGCCCGCTACGACTCGCAGGTGCTGGTCGAGCAGTGGATC
AGCGGCCCGGAATTCACCGTGGCGACCTTGCGCGGGCAGGTGCTGCCGGCGATCCGCCTGGGCACGCCGCAC
ACCTTCTACGACTACGACGCCAAGTACCTGGCCAGCGATACCCGCTACCAGGTGCCCTGCGGTCTCGACGAG
GCCAAGGAACGCGAGCTGAAGGAACTCACCGCGCGCGCCTGCGACGCCCTGGGCATCCAGGGCTGGGGGCGG
GCGGACGTGATGCAGGACGCCGAAGGGCGTTTCTGGCTGCTTGAAGTCAACACCGCACCAGGCATGACCGAC
CACAGCCTGGTGCCTATGGCCGTGCGGGCCGCCGGCCTGGATTTCCAGCAACTGGTGCTGGCGATCCTGGCC
GATAGCCGCGAGGCGAGGGGATAA
Translation:
MNLCLDSLLNGTQDPKAFGRVAVLFGGKSAEREVSLKSGAMVLQSLLAAGVDAFGIDVGEDLLQRLVEEKID
RAFIILHGRGGEDGSMQGLLECAGIPYTGSGVLASALAMDKLRTKRVWLSLGLPTPDYAVLASEDDCRDAAQ
RLGFPLIVKPAHEGSSIGMAKVGGLDELIAAWREAARYDSQVLVEQWISGPEFTVATLRGQVLPAIRLGTPH
TFYDYDAKYLASDTRYQVPCGLDEAKERELKELTARACDALGIQGWGRADVMQDAEGRFWLLEVNTAPGMTD
HSLVPMAVRAAGLDFQQLVLAILADSREARG*
AnnotationID:2290GeneID:2282
AnnotatorUID: diggins
Modification Date/Time: 2005-05-02 17:05:12
Gene Name:ddlB
Confidence Code:2
GeneProduct: D-alanine--D-alanine ligase
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:pfam01820,COG1181
Secondary Functional Category(ies):
EC Number:6.3.2.4
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57855.1| (AE016871) D-alanine--D-alanine ligase [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 319

 Score =  502 bits (1293), Expect = e-141
 Identities = 250/313 (79%), Positives = 278/313 (88%)


>gb|AAN66962.1|AE016324_12 (AE016779) D-alanine--D-alanine ligase B [Pseudomonas putida
           KT2440]
          Length = 318

 Score =  499 bits (1286), Expect = e-141
 Identities = 245/311 (78%), Positives = 271/311 (87%)






 
Structural Features:
pfam01820, Dala_Dala_ligas, D-ala D-ala ligase. 
CD-Length = 336 residues,  99.4% aligned
Score =  322 bits (827), Expect = 7e-89
Identities = 132/334 (39%), Positives = 182/334 (54%), Gaps = 42/334 (12%)

COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp enzymes 
[Cell envelope biogenesis, outer membrane]
CD-Length = 317 residues,  99.4% aligned
Score =  306 bits (784), Expect = 7e-84
Identities = 145/315 (46%), Positives = 175/315 (55%), Gaps = 18/315 (5%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4567




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21713




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:29515




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2282_cdd.html


    		




 
URL:

















    ReferenceID:32795




  
Author/Investigator(s):
        Azzolina BA, Yuan X, Anderson MS, El-Sherbeini M.





  
Title:
        The cell wall and cell division gene cluster in the Mra operon of Pseudomonas aeruginosa: cloning, production, and purification of active enzymes.




  
PubMed:
        11281713


MedLine:
        




    
Source:
Protein Expr Purif. 2001 Apr;21(3):393-400.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11281713









           
Homologs By Global Alignment 

           

       



     
Gene ID:2282
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3880
                           PA4410_tr
                           translation of PA4410
                           319
                           99.37
                           99.68
                           0
                           1624.0
     

     
     
118545
                           gb|AAG07798.1|AE004856_9
                           (AE004856) D-alanine--D-alanine ligase [Pseudomonas aeruginosa PAO1]
                           319
                           99.37
                           99.68
                           0
                           1624.0
     

     
     
118546
                           gb|AAF26456.1|
                           (U19797) D-alanine:D-alanine ligase B [Pseudomonas aeruginosa]
                           319
                           99.37
                           99.68
                           0
                           1624.0
     

     
     
118547
                           gb|AAO57855.1|
                           (AE016871) D-alanine--D-alanine ligase [Pseudomonas syringae pv. tomato str. DC3000]
                           319
                           78.68
                           87.46
                           0
                           1293.0
     

     
     
118548
                           gb|AAN66962.1|AE016324_12
                           (AE016779) D-alanine--D-alanine ligase B [Pseudomonas putida KT2440]
                           319
                           77.42
                           85.57
                           1
                           1284.0
     

     






      

          
GC ORFID: 45284How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4410Glimmer Score: 

          
Start: 4370872Stop: 4369913

          
Length: 960


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4410 translation of PA4410Homolog Bit Score 630.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1130 (ORF: BLASTX 500.0), t_PA4201 (ORF: BLASTX 206.0), t_PA4410 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACCTTTGCCTCGATAGCCTGCTGAACGGCACCCAGGATCCCAAGGCGTTCGGCCGTGTCGCCGTGCTG 
TTCGGTGGCAAGAGCGCCGAGCGCGAGGTGTCGCTGAAGTCCGGCGCGATGGTCCTGCAATCCCTGCTGGCC 
GCCGGGGTCGATGCCTTCGGCATCGATGTCGGCGAAGACCTGCTGCAACGCCTGGTCGAGGAGAAGATCGAC 
CGCGCCTTCATCATTCTCCACGGTCGTGGCGGCGAGGATGGCAGCATGCAGGGCCTGCTCGAGTGCGCGGGC 
ATTCCCTACACCGGCAGCGGCGTGCTGGCCTCGGCGCTGGCGATGGACAAGCTGCGGACCAAGCGGGTCTGG 
CTCAGCCTCGGCCTGCCGACCCCGGACTACGCGGTGCTGGCCAGCGAGGATGACTGCCGCGACGCGGCGCAG 
CGACTGGGTTTCCCGCTGATCGTCAAGCCGGCTCACGAAGGCTCGAGCATCGGCATGGCCAAGGTCGGCGGG 
CTCGACGAATTGATCGCGGCGTGGCGCGAAGCGGCCCGCTACGACTCGCAGGTGCTGGTCGAGCAGTGGATC 
AGCGGCCCGGAATTCACCGTGGCGACCTTGCGCGGGCAGGTGCTGCCGGCGATCCGCCTGGGCACGCCGCAC 
ACCTTCTACGACTACGACGCCAAGTACCTGGCCAGCGATACCCGCTACCAGGTGCCCTGCGGTCTCGACGAG 
GCCAAGGAACGCGAGCTGAAGGAACTCACCGCGCGCGCCTGCGACGCCCTGGGCATCCAGGGCTGGGGGCGG 
GCGGACGTGATGCAGGACGCCGAAGGGCGTTTCTGGCTGCTTGAAGTCAACACCGCACCAGGCATGACCGAC 
CACAGCCTGGTGCCTATGGCCGTGCGGGCCGCCGGCCTGGATTTCCAGCAACTGGTGCTGGCGATCCTGGCC 
GATAGCCGCGAGGCGAGGGGATAA