ViewGene
Locus Name:
GeneID:
Location:

GeneID:4647
TrivialName: PA14_68400
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68400
PAO1 Ortholog Locus:PA5178
Sequence Length:438
Protein Length:145
Start: 6102964
Stop: 6102527
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08563.1|AE004930_9 (AE004930) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 145/145 (100%), Positives = 145/145 (100%)
Sequence:
ATGGGTATTTTCGCGTTCGTGAAGGAAGCCGGTGAAAAGCTGTGGGATACGCTGACGGGGCATGAGGCACAG
GCGGCCGAGTCGCTGAAGGAGCACGTCGCCAAGGTCGGCCTGGGCAACCCGAACATCCAGGTTTCGGTGGAA
GGCGACAAGGTCATCGCCTCGGGCGAGGTGGCCAGCCAGGAGGAGAAAGAGAAGATCCTGCTGGCGCTGGGC
AACGTCGCCGGCGTCTCCTCGGTGGAAGACAAGATCACCGTGGCCCAGGCCGCTCCGGAGGCGCGCTTCGTC
ACCGTGAAGAAAGGCGACACCCTGAGCGCCATCGCCAAGGCCGAATACGGCAATGCCAACGCCTACATGAAG
ATCTTCGAGGCCAACAAGCCGATGCTCAGCCATCCGGACAAGATCTACCCCGGCCAGGTCCTGCGCATTCCC
GAGTGA
Translation:
MGIFAFVKEAGEKLWDTLTGHEAQAAESLKEHVAKVGLGNPNIQVSVEGDKVIASGEVASQEEKEKILLALG
NVAGVSSVEDKITVAQAAPEARFVTVKKGDTLSAIAKAEYGNANAYMKIFEANKPMLSHPDKIYPGQVLRIP
E*
AnnotationID:4653GeneID:4647
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 16:04:46
Gene Name:
Confidence Code:3
GeneProduct:putative LysM domain protein
Cell Localization:()
Synonyms:ygaU
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam01476,cd00118,smart00257,pfam04972
Secondary Functional Category(ies):putative enzyme
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65889.1|AE016217_1 (AE016775) LysM domain protein [Pseudomonas putida KT2440]
          Length = 146

 Score =  202 bits (515), Expect = 3e-52
 Identities = 105/146 (71%), Positives = 116/146 (79%), Gaps = 1/146 (0%)

>gb|AAO58826.1| (AE016875) LysM domain protein [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 146

 Score =  167 bits (424), Expect = 1e-41
 Identities = 83/146 (56%), Positives = 108/146 (73%), Gaps = 1/146 (0%)

>gb|AAL21680.1| (AE008827) putative LysM domain [Salmonella typhimurium LT2]
          Length = 149

 Score =  163 bits (413), Expect = 2e-40
 Identities = 82/148 (55%), Positives = 109/148 (73%), Gaps = 3/148 (2%)






 
Structural Features:
pfam01476, LysM, LysM domain.
CD-Length = 44 residues, 100.0% aligned
Score = 50.0 bits (120), Expect = 9e-08
Identities = 25/49 (51%), Positives = 32/49 (65%), Gaps = 5/49 (10%)

cd00118, LysM, Lysin domain, found in a variety of enzymes involved in 
bacterial cell wall degradation. 
This domain may have a general peptidoglycan binding function.
CD-Length = 46 residues,  97.8% aligned
Score = 48.2 bits (115), Expect = 4e-07
Identities = 23/50 (46%), Positives = 31/50 (62%), Gaps = 5/50 (10%)

smart00257, LysM, Lysin motif
CD-Length = 45 residues, 100.0% aligned
Score = 47.7 bits (114), Expect = 5e-07
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 5/50 (10%)

pfam04972, BON, Putative phospholipid-binding domain. 
CD-Length = 64 residues, 100.0% aligned
Score = 48.6 bits (116), Expect = 3e-07
Identities = 27/64 (42%), Positives = 33/64 (51%), Gaps = 1/64 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9295




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26436




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34893




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4647_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4647
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7015
                           PA5178_tr
                           translation of PA5178
                           145
                           99.99
                           99.99
                           0
                           724.0
     

     
     
185745
                           gb|AAG08563.1|AE004930_9
                           (AE004930) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           145
                           99.99
                           99.99
                           0
                           724.0
     

     
     
185746
                           gb|AAN65889.1|AE016217_1
                           (AE016775) LysM domain protein [Pseudomonas putida KT2440]
                           146
                           71.91
                           79.45
                           1
                           517.0
     

     
     
185747
                           gb|AAO58826.1|
                           (AE016875) LysM domain protein [Pseudomonas syringae pv. tomato str. DC3000]
                           146
                           56.84
                           73.97
                           1
                           426.0
     

     
     
185754
                           gb|AAC75712.1|
                           (AE000351) orf, hypothetical protein [Escherichia coli K12]
                           149
                           55.03
                           73.82
                           4
                           418.0
     

     






      

          
GC ORFID: 47649How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5178Glimmer Score: 

          
Start: 5366650Stop: 5366213

          
Length: 438


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5178 translation of PA5178Homolog Bit Score 283.0

          
Other Homologs:  psyr_15may02_Scaffold14_revised_gene2431 (ORF: BLASTX 173.0), t_PA5178 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGGTATTTTCGCGTTCGTGAAGGAAGCCGGTGAAAAGCTGTGGGATACGCTGACGGGGCATGAGGCACAG 
GCGGCCGAGTCGCTGAAGGAGCACGTCGCCAAGGTCGGCCTGGGCAACCCGAACATCCAGGTTTCGGTGGAA 
GGCGACAAGGTCATCGCCTCGGGCGAGGTGGCCAGCCAGGAGGAGAAAGAGAAGATCCTGCTGGCGCTGGGC 
AACGTCGCCGGCGTCTCCTCGGTGGAAGACAAGATCACCGTGGCCCAGGCCGCTCCGGAGGCGCGCTTCGTC 
ACCGTGAAGAAAGGCGACACCCTGAGCGCCATCGCCAAGGCCGAATACGGCAATGCCAACGCCTACATGAAG 
ATCTTCGAGGCCAACAAGCCGATGCTCAGCCATCCGGACAAGATCTACCCCGGCCAGGTCCTGCGCATTCCC 
GAGTGA