ViewGene
Locus Name:
GeneID:
Location:

GeneID:999
TrivialName: PA14_65370
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_65370
PAO1 Ortholog Locus:PA4947
Sequence Length:1428
Protein Length:475
Start: 5824498
Stop: 5823071
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08332.1|AE004907_10 (AE004907) N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa PAO1]
Identities = 474/475 (99%), Positives = 474/475 (99%)
Sequence:
ATGGGTTGGGGCTTGCGTCTGCGGACGTTGTTGACTGGGGTGATGATTCTGCTGGCCTGCCAGGTCGGCGAG
GTTCTGGCCGCCGCGCAAATCAAGAGCGTGCGGATCTGGCGCGCTCCGGACAACACCCGTCTGGTCTTCGAT
CTCTCCGGTCCGGTGCAGCACAGCCTGTTCACCCTGGCCGCACCCAACCGTATCGTCATCGACGTCAGCGGC
GCCCAGCTGGCGACCCAGCTCAACGGTCTCAAGCTCGGCAACACCCCGATCACCGCGGTGCGCTCCGCCCAG
CGCACGCCCAACGACCTGCGCATGGTCCTCGACCTGTCGGCGCAGGTCACCCCGAAAAGCTTCGTCCTGCCG
CCCAACCAGCAATACGGCAACCGCCTGGTGGTCGATCTCTACGACCAGGGCGCCGACCTGACCCCGGACGTA
CCCGCGACGCCGACCCCGAGCGTGCCGGTCACTCCGGTGACGCCGACCCAGCCGGTGGCCAAGCTGCCGCTG
CCGACCaAGGGCGGTACCCGCGATATCGTCATCGCCATCGACGCCGGCCACGGCGGTGAAGACCCTGGCGCC
CTTGGCCCGGGCGGGCTGCACGAGAAGAACATCACCCTGTCGATCGCTCGCGAGCTGCAACGCCAGATCAAC
CAGGTGCGCGGTTACCGGGCCGAGCTGACCCGTACCGGCGACTACTTCATCCCACTGCGCAAGCGCACCGAG
ATCGCCCGCAAGAAGGGCGCCGACCTGTTCGTCTCGATCCATGCCGACGCCGCGCCGAGCCGCAGCGCCTTC
GGTGCCTCGGTGTTCGCCCTGTCCGACCGCGGCGCCACTTCGGAAACCGCGCGCTGGCTGGCCGACAGCGAG
AACCGTTCCGACCTGATCGGCGGCGATGGCAGCGTCAGCCTCGGCGACAAGGACCAGATGCTCGCCGGCGTG
CTGCTCGACCTGTCGATGACCGCCACCCTCTCGTCGAGCCTGGACGTCGGCCACAAGGTGCTGACCAATGTC
GGCCGCATCACTTCGCTGCACAAGCGTCGTGTCGAGCAGGCCGGGTTCATGGTGTTGAAGTCGCCGGACATC
CCGTCGATCCTGGTGGAAACCGGCTTCATCTCGAACGTCAACGAGTCGCGCAAGCTGGCCAGCGCCAGCCAT
CAGCAGGCCTTGGCGCGTTCGATCACCAGCGGCATCCGCCAGTATTTCCAGCAGAGCCCGCCGCCCGGCACC
TACATCGCCTCTTTGCGCGCCCAGGGCAAGCTCTCCATGGGGCCGCGCGAGCACGTGGTGCGGCCCGGAGAG
ACCCTGGCGATGATCGCCCAGCGCTATGAAGTGAGCATGGCCGCGCTGCGCAGCAGCAACAGCCTGCCCAGC
GACAACCTGAAAGTCGGCCAGGCCCTGTCCATCCCGAGCACCGCCCTGGCGGCCCAGTGA
Translation:
MGWGLRLRTLLTGVMILLACQVGEVLAAAQIKSVRIWRAPDNTRLVFDLSGPVQHSLFTLAAPNRIVIDVSG
AQLATQLNGLKLGNTPITAVRSAQRTPNDLRMVLDLSAQVTPKSFVLPPNQQYGNRLVVDLYDQGADLTPDV
PATPTPSVPVTPVTPTQPVAKLPLPTKGGTRDIVIAIDAGHGGEDPGALGPGGLHEKNITLSIARELQRQIN
QVRGYRAELTRTGDYFIPLRKRTEIARKKGADLFVSIHADAAPSRSAFGASVFALSDRGATSETARWLADSE
NRSDLIGGDGSVSLGDKDQMLAGVLLDLSMTATLSSSLDVGHKVLTNVGRITSLHKRRVEQAGFMVLKSPDI
PSILVETGFISNVNESRKLASASHQQALARSITSGIRQYFQQSPPPGTYIASLRAQGKLSMGPREHVVRPGE
TLAMIAQRYEVSMAALRSSNSLPSDNLKVGQALSIPSTALAAQ*
AnnotationID:1008GeneID:999
AnnotatorUID: danlee
Modification Date/Time: 2006-02-03 12:12:41
Gene Name:amiB
Confidence Code:2
GeneProduct:N-acetylmuramoyl-L-alanine amidase
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:COG0860,smart00646,pfam01520
Secondary Functional Category(ies):
EC Number:3.5.1.28
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70464.1|AE016688_3 (AE016792) N-acetylmuramoyl-L-alanine amidase [Pseudomonas putida
           KT2440]
          Length = 476

 Score =  673 bits (1736), Expect = 0.0
 Identities = 349/478 (73%), Positives = 396/478 (82%), Gaps = 9/478 (1%)

>gb|AAO58373.1| (AE016873) N-acetylmuramoyl-L-alanine amidase, family 3
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 471

 Score =  654 bits (1688), Expect = 0.0
 Identities = 337/473 (71%), Positives = 391/473 (82%), Gaps = 4/473 (0%)








 
Structural Features:
COG0860, AmiC, N-acetylmuramoyl-L-alanine amidase 
[Cell envelope biogenesis, outer membrane]
CD-Length = 231 residues, 100.0% aligned
Score =  201 bits (513), Expect = 1e-52
Identities = 94/269 (34%), Positives = 126/269 (46%), Gaps = 38/269 (14%)

smart00646, Ami_3, Ami_3 domain.
CD-Length = 114 residues, 100.0% aligned
Score =  110 bits (276), Expect = 4e-25
Identities = 49/159 (30%), Positives = 78/159 (49%), Gaps = 45/159 (28%)

pfam01520, Amidase_3, N-acetylmuramoyl-L-alanine amidase.
CD-Length = 115 residues, 100.0% aligned
Score =  106 bits (267), Expect = 5e-24
Identities = 46/163 (28%), Positives = 67/163 (41%), Gaps = 48/163 (29%)







   
Genomic Context:






   
Comment:


















    ReferenceID:2001




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19143




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35113




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:999_cdd.html


    		




 
URL:

















    ReferenceID:35898




  
Author/Investigator(s):
        Wilson SA, Williams RJ, Pearl LH, Drew RE.





  
Title:
        Identification of two new genes in the Pseudomonas aeruginosa amidase operon, encoding an ATPase (AmiB) and a putative integral membrane protein (AmiS).




  
PubMed:
        7642533


MedLine:
        




    
Source:
J Biol Chem. 1995 Aug 11;270(32):18818-24.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7642533









           
Homologs By Global Alignment 

           

       



     
Gene ID:999
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1798
                           PA4947_tr
                           translation of PA4947
                           475
                           99.78
                           99.78
                           0
                           2372.0
     

     
     
62755
                           gb|AAG08332.1|AE004907_10
                           (AE004907) N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa PAO1]
                           475
                           99.78
                           99.78
                           0
                           2372.0
     

     
     
62756
                           gb|AAN70464.1|AE016688_3
                           (AE016792) N-acetylmuramoyl-L-alanine amidase [Pseudomonas putida KT2440]
                           482
                           73.02
                           82.78
                           13
                           1748.0
     

     
     
62757
                           gb|AAO58373.1|
                           (AE016873) N-acetylmuramoyl-L-alanine amidase, family 3 [Pseudomonas syringae pv. tomato str. DC3000]
                           477
                           70.64
                           81.97
                           8
                           1694.0
     

     
     
62760
                           gb|AAN53678.1|AE015507_4
                           (AE015507) N-acetylmuramoyl-L-alanine amidase [Shewanella oneidensis MR-1]
                           498
                           43.57
                           58.23
                           58
                           946.0
     

     






      

          
GC ORFID: 44001How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4947Glimmer Score: 

          
Start: 5088179Stop: 5086752

          
Length: 1428


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4947 translation of PA4947Homolog Bit Score 918.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3427 (ORF: BLASTX 663.0), t_PA4947 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGGTTGGGGCTTGCGTCTGCGGACGTTGTTGACTGGGGTGATGATTCTGCTGGCCTGCCAGGTCGGCGAG 
GTTCTGGCCGCCGCGCAAATCAAGAGCGTGCGGATCTGGCGCGCTCCGGACAACACCCGTCTGGTCTTCGAT 
CTCTCCGGTCCGGTGCAGCACAGCCTGTTCACCCTGGCCGCACCCAACCGTATCGTCATCGACGTCAGCGGC 
GCCCAGCTGGCGACCCAGCTCAACGGTCTCAAGCTCGGCAACACCCCGATCACCGCGGTGCGCTCCGCCCAG 
CGCACGCCCAACGACCTGCGCATGGTCCTCGACCTGTCGGCGCAGGTCACCCCGAAAAGCTTCGTCCTGCCG 
CCCAACCAGCAATACGGCAACCGCCTGGTGGTCGATCTCTACGACCAGGGCGCCGACCTGACCCCGGACGTA 
CCCGCGACGCCGACCCCGAGCGTGCCGGTCACTCCGGTGACGCCGACCCAGCCGGTGGCCAAGCTGCCGCTG 
CCGACCaAGGGCGGTACCCGCGATATCGTCATCGCCATCGACGCCGGCCACGGCGGTGAAGACCCTGGCGCC 
CTTGGCCCGGGCGGGCTGCACGAGAAGAACATCACCCTGTCGATCGCTCGCGAGCTGCAACGCCAGATCAAC 
CAGGTGCGCGGTTACCGGGCCGAGCTGACCCGTACCGGCGACTACTTCATCCCACTGCGCAAGCGCACCGAG 
ATCGCCCGCAAGAAGGGCGCCGACCTGTTCGTCTCGATCCATGCCGACGCCGCGCCGAGCCGCAGCGCCTTC 
GGTGCCTCGGTGTTCGCCCTGTCCGACCGCGGCGCCACTTCGGAAACCGCGCGCTGGCTGGCCGACAGCGAG 
AACCGTTCCGACCTGATCGGCGGCGATGGCAGCGTCAGCCTCGGCGACAAGGACCAGATGCTCGCCGGCGTG 
CTGCTCGACCTGTCGATGACCGCCACCCTCTCGTCGAGCCTGGACGTCGGCCACAAGGTGCTGACCAATGTC 
GGCCGCATCACTTCGCTGCACAAGCGTCGTGTCGAGCAGGCCGGGTTCATGGTGTTGAAGTCGCCGGACATC 
CCGTCGATCCTGGTGGAAACCGGCTTCATCTCGAACGTCAACGAGTCGCGCAAGCTGGCCAGCGCCAGCCAT 
CAGCAGGCCTTGGCGCGTTCGATCACCAGCGGCATCCGCCAGTATTTCCAGCAGAGCCCGCCGCCCGGCACC 
TACATCGCCTCTTTGCGCGCCCAGGGCAAGCTCTCCATGGGGCCGCGCGAGCACGTGGTGCGGCCCGGAGAG 
ACCCTGGCGATGATCGCCCAGCGCTATGAAGTGAGCATGGCCGCGCTGCGCAGCAGCAACAGCCTGCCCAGC 
GACAACCTGAAAGTCGGCCAGGCCCTGTCCATCCCGAGCACCGCCCTGGCGGCCCAGTGA