ViewGene
Locus Name:
GeneID:
Location:

GeneID:1885
TrivialName: PA14_65110
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_65110
PAO1 Ortholog Locus:PA4930
Sequence Length:1077
Protein Length:358
Start: 5805469
Stop: 5804393
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAD47082.1|AF165882_1 (AF165882) biosynthetic alanine racemase [Pseudomonas aeruginosa]
Identities = 355/358 (99%), Positives = 356/358 (99%)
Sequence:
ATGCGTCCCCTCGTTGCCACCGTCGACCTTTCCGCCATTCGCCACAACTATGCCCTGGCCAAGCGCTGCGCG
CCGCAGCGCCAGGCGTTCGCGGTGGTCAAGGCGAACGCCTATGGCCACGGTGCGCGCGAAGTGGTTACCGCG
TTGCACGACGATGCCGATGGCTTCGCCGTAGCCTGCCTGGAGGAGGCCGCGGAAGTCCGCGCCTTGCACGCC
AGCGCGCGCATCCTGTTGCTGGAAGGCTGCTTCGAGGCGAGCGAATACGCCCTCGCCGGGCAATTGCGCCTG
GACCTGGTGATCCAGGGCGCGGAACAGGGCGAGGCGTTCCTCGCCGCCGGCCTGGATATTCCACTCAACGTC
TGGCTCAAGCTCGACTCCGGCATGCACCGCCTGGGCTTCGATCCCGTCGCGCTGCGCGCCTGGCATGCGCGC
CTGCGCAACCATCCCGGTGTGCGCGAACTGAACCTGATCAGCCATTTCGCCTGCGCCGACGAACGCAACCAT
CCGCTCACCGAGCAGCAGTTGGAGAGTTTCCTCGGCCTGCTCGACCTGGATTTCGACCAGCGCAGCCTGGCC
AACTCGGCGGCGGTGCTGACCATCCCGGCCGCCCACATGGATTGGCTACGGCCGGGGATCATGCTCTACGGG
TCGACCCCGCTGGCCGACCTGAGTGCCGCCGAACTGGGCCTGAGGCCGGCCATGAGCCTGGGCGCGCAGTTG
ATTTCGCTGCGCGAGGTGGCCGTGGGCGAGAGCGTCGGCTACGGCGCCACCTGGATCGCCGAGCGGCCGGCG
CGGATCGGCACGGTCAGTTGCGGCTACGCCGACGGCTACCCGCGCACCGCGCCAGCCGGGACTCCGGTACTG
GTCGGGGGACGCCGCGCGACCCTGGCCGGGCGGGTCTCGATGGACATGCTGGCGGTCGACCTCTCCGACCTG
CCGGAGGCTCGCGTTGGCGACCCGGTGGAGTTGTGGGGCGCCGGGTTGTCGGTGGACGAGGTCGCCCGTGCC
TGCGGCACCCTCGGCTACGAGCTTCTGAGCAAGGTCACGGCCCGGGTTCCGCGACGCTACAGCCACTGA
Translation:
MRPLVATVDLSAIRHNYALAKRCAPQRQAFAVVKANAYGHGAREVVTALHDDADGFAVACLEEAAEVRALHA
SARILLLEGCFEASEYALAGQLRLDLVIQGAEQGEAFLAAGLDIPLNVWLKLDSGMHRLGFDPVALRAWHAR
LRNHPGVRELNLISHFACADERNHPLTEQQLESFLGLLDLDFDQRSLANSAAVLTIPAAHMDWLRPGIMLYG
STPLADLSAAELGLRPAMSLGAQLISLREVAVGESVGYGATWIAERPARIGTVSCGYADGYPRTAPAGTPVL
VGGRRATLAGRVSMDMLAVDLSDLPEARVGDPVELWGAGLSVDEVARACGTLGYELLSKVTARVPRRYSH*
AnnotationID:1894GeneID:1885
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 07:07:05
Gene Name:alr
Confidence Code:1
GeneProduct:biosynthetic alanine racemase
Cell Localization:()
Synonyms:dadX
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:alanine racemase, catabolic
Functional Category Confidence Code:5
COGs:COG0787,cd00430,pfam01168,pfam00842
Secondary Functional Category(ies):
EC Number:5.1.1.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53657.1| (AE016856) alanine racemase, catabolic [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 357

 Score =  328 bits (840), Expect = 4e-89
 Identities = 184/357 (51%), Positives = 230/357 (64%), Gaps = 2/357 (0%)

>gb|AAN70834.1|AE016728_3 (AE016793) alanine racemase, catabolic [Pseudomonas putida KT2440]
          Length = 357

 Score =  323 bits (827), Expect = 1e-87
 Identities = 179/356 (50%), Positives = 225/356 (63%), Gaps = 2/356 (0%)

>gb|AAO09842.1|AE016801_161 (AE016801) Alanine racemase [Vibrio vulnificus CMCP6]
          Length = 366

 Score =  318 bits (814), Expect = 4e-86
 Identities = 172/359 (47%), Positives = 230/359 (64%), Gaps = 4/359 (1%)








 
Structural Features:
COG0787, Alr, Alanine racemase [Cell envelope biogenesis, outer membrane]
CD-Length = 360 residues,  99.2% aligned
Score =  411 bits (1058), Expect = 7e-116
Identities = 180/360 (50%), Positives = 220/360 (61%), Gaps = 7/360 (1%)

cd00430, Ala_racemase, Alanine racemase.
CD-Length = 361 residues, 100.0% aligned
Score =  395 bits (1017), Expect = 4e-111
Identities = 161/335 (48%), Positives = 199/335 (59%), Gaps = 10/335 (2%)

pfam01168, Ala_racemase_N, Alanine racemase, N-terminal domain.
CD-Length = 227 residues, 100.0% aligned
Score =  194 bits (494), Expect = 1e-50
Identities = 114/228 (50%), Positives = 130/228 (57%), Gaps = 11/228 (4%)

pfam00842, Ala_racemase_C, Alanine racemase, C-terminal domain.
CD-Length = 126 residues,  99.2% aligned
Score =  180 bits (458), Expect = 3e-46
Identities = 76/125 (60%), Positives = 93/125 (74%), Gaps = 1/125 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3773




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20920




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35137




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1885_cdd.html


    		




 
URL:

















    ReferenceID:35924




  
Author/Investigator(s):
        Strych U, Huang HC, Krause KL, Benedik MJ.





  
Title:
        Characterization of the alanine racemases from Pseudomonas aeruginosa PAO1.




  
PubMed:
        10977898


MedLine:
        




    
Source:
Curr Microbiol. 2000 Oct;41(4):290-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10977898









           
Homologs By Global Alignment 

           

       



     
Gene ID:1885
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
103156
                           gb|AAD47082.1|AF165882_1
                           (AF165882) biosynthetic alanine racemase [Pseudomonas aeruginosa]
                           358
                           99.16
                           99.44
                           0
                           1820.0
     

     
     
3328
                           PA4930_tr
                           translation of PA4930
                           358
                           98.88
                           99.44
                           0
                           1815.0
     

     
     
103157
                           gb|AAG08315.1|AE004906_3
                           (AE004906) biosynthetic alanine racemase [Pseudomonas aeruginosa PAO1]
                           358
                           98.88
                           99.44
                           0
                           1815.0
     

     
     
103158
                           gb|AAO53657.1|
                           (AE016856) alanine racemase, catabolic [Pseudomonas syringae pv. tomato str. DC3000]
                           363
                           51.23
                           64.18
                           11
                           845.0
     

     
     
103164
                           gb|AAD47081.1|AF165881_1
                           (AF165881) catabolic alanine racemase DadX [Pseudomonas aeruginosa]
                           365
                           49.86
                           61.64
                           15
                           791.0
     

     






      

          
GC ORFID: 44887How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4930Glimmer Score: 

          
Start: 5069150Stop: 5068074

          
Length: 1077


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4930 translation of PA4930Homolog Bit Score 703.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3159 (ORF: BLASTX 314.0), t_PA5302 (ORF: BLASTX 306.0), t_PA4930 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGTCCCCTCGTTGCCACCGTCGACCTTTCCGCCATTCGCCACAACTATGCCCTGGCCAAGCGCTGCGCG 
CCGCAGCGCCAGGCGTTCGCGGTGGTCAAGGCGAACGCCTATGGCCACGGTGCGCGCGAAGTGGTTACCGCG 
TTGCACGACGATGCCGATGGCTTCGCCGTAGCCTGCCTGGAGGAGGCCGCGGAAGTCCGCGCCTTGCACGCC 
AGCGCGCGCATCCTGTTGCTGGAAGGCTGCTTCGAGGCGAGCGAATACGCCCTCGCCGGGCAATTGCGCCTG 
GACCTGGTGATCCAGGGCGCGGAACAGGGCGAGGCGTTCCTCGCCGCCGGCCTGGATATTCCACTCAACGTC 
TGGCTCAAGCTCGACTCCGGCATGCACCGCCTGGGCTTCGATCCCGTCGCGCTGCGCGCCTGGCATGCGCGC 
CTGCGCAACCATCCCGGTGTGCGCGAACTGAACCTGATCAGCCATTTCGCCTGCGCCGACGAACGCAACCAT 
CCGCTCACCGAGCAGCAGTTGGAGAGTTTCCTCGGCCTGCTCGACCTGGATTTCGACCAGCGCAGCCTGGCC 
AACTCGGCGGCGGTGCTGACCATCCCGGCCGCCCACATGGATTGGCTACGGCCGGGGATCATGCTCTACGGG 
TCGACCCCGCTGGCCGACCTGAGTGCCGCCGAACTGGGCCTGAGGCCGGCCATGAGCCTGGGCGCGCAGTTG 
ATTTCGCTGCGCGAGGTGGCCGTGGGCGAGAGCGTCGGCTACGGCGCCACCTGGATCGCCGAGCGGCCGGCG 
CGGATCGGCACGGTCAGTTGCGGCTACGCCGACGGCTACCCGCGCACCGCGCCAGCCGGGACTCCGGTACTG 
GTCGGGGGACGCCGCGCGACCCTGGCCGGGCGGGTCTCGATGGACATGCTGGCGGTCGACCTCTCCGACCTG 
CCGGAGGCTCGCGTTGGCGACCCGGTGGAGTTGTGGGGCGCCGGGTTGTCGGTGGACGAGGTCGCCCGTGCC 
TGCGGCACCCTCGGCTACGAGCTTCTGAGCAAGGTCACGGCCCGGGTTCCGCGACGCTACAGCCACTGA