ViewGene
Locus Name:
GeneID:
Location:

GeneID:2557
TrivialName: PA14_17470
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_17470
PAO1 Ortholog Locus:PA3623
Sequence Length:894
Protein Length:297
Start: 1498099
Stop: 1498992
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07011.1|AE004782_9 (AE004782) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 292/297 (98%), Positives = 293/297 (98%)
Sequence:
ATGGATAAGGGGGAAGGATTGAGGCTAGCAGCGACCCTGCGGCAATGGACTCGGCTCTACGGTGGCTGCCAC
CTGTTGCTCGGGGCCGTCGTCTGTTCCCTTCTCGCCGCCTGTTCGTCGTCGCCTCCCGGCGGGGTCAAGGTC
GTCGATCGCAACGGTTCCGCGCCTGCCGCTGCGCGGCGTACGCCGGTCACCAGCGGGCAGTACATCGTGCGC
CGCGGCGACACCCTGTATTCCATTGCCTTCCGCTTCGGCTGGGACTGGAAAGCCCTGGCCGCGCGCAATGGC
ATCGCGCCGCCCTATACCATCCAGGTCGGTCAAGCTATCCAATTTGGTGGGCGGGCACCGGCGCAACCGTCC
GTCGCGAAAAACACGCCGGTCGTCGCTCCGCCCGTGGCGACCAAGCCTGCCCCGGTTCCACCCGCTGTTAGT
ACGTCGGTACCTGCCAAGCCCGCACCGGCTCCGGCCTCGACCACGACCCCACCCAGCAGCGGCGCGACTCCC
GTCGTTGCGGGGCCTGCGGTGGGCGGTTGGGCATGGCCTGCGAGCGGTAGTCTGATCGGCCGTTTTGCCTCA
AACGGAAGTTTGAATAAAGGGATTGATATAGCCGGTCAATTGGGCCAGCCTGTCCTGGCTGCGTCTGGTGGG
ACCGTTGTATACGCCGGTAGTGGTTTGCGGGGCTACGGCGAGTTGGTCATCATCAAACACAACGAGACCTAC
GTGAGTGCCTACGGTCACAACCGCAGGCTGCTGGTGCGGGAAGGGCAACAGGTCAAGGTAGGGCAATCGATT
GCCGAGATGGGCTCCACAGGAACCGATCGGGTGAAGCTGCACTTCGAGATTCGCCGCCAGGGTAAGCCTGTC
GATCCACTGCAATATTTGCCACGTCGCTGA
Translation:
MDKGEGLRLAATLRQWTRLYGGCHLLLGAVVCSLLAACSSSPPGGVKVVDRNGSAPAAARRTPVTSGQYIVR
RGDTLYSIAFRFGWDWKALAARNGIAPPYTIQVGQAIQFGGRAPAQPSVAKNTPVVAPPVATKPAPVPPAVS
TSVPAKPAPAPASTTTPPSSGATPVVAGPAVGGWAWPASGSLIGRFASNGSLNKGIDIAGQLGQPVLAASGG
TVVYAGSGLRGYGELVIIKHNETYVSAYGHNRRLLVREGQQVKVGQSIAEMGSTGTDRVKLHFEIRRQGKPV
DPLQYLPRR*
AnnotationID:2565GeneID:2557
AnnotatorUID: diggins
Modification Date/Time: 2005-04-20 18:06:04
Gene Name:
Confidence Code:3
GeneProduct:putative lipoprotein NlpD
Cell Localization:()
Synonyms:nlpD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0739
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55084.1| (AE016861) lipoprotein NlpD, putative [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 288

 Score =  345 bits (885), Expect = 2e-94
 Identities = 178/274 (64%), Positives = 208/274 (75%), Gaps = 4/274 (1%)

>gb|AAF70311.1|AF260132_2 (AF260132) NlpD [Pseudomonas putida]
          Length = 269

 Score =  290 bits (743), Expect = 5e-78
 Identities = 164/261 (62%), Positives = 185/261 (70%), Gaps = 24/261 (9%)

>emb|CAD14908.1| (AL646063) PROBABLE LIPOPROTEIN NLPD/LPPB HOMOLOG [Ralstonia
           solanacearum]
          Length = 268

 Score =  200 bits (508), Expect = 1e-50
 Identities = 130/275 (47%), Positives = 160/275 (58%), Gaps = 24/275 (8%)






 
Structural Features:
COG0739, NlpD, Membrane proteins related to metalloendopeptidases 
[Cell envelope biogenesis, outer membrane]
CD-Length = 277 residues,  95.3% aligned
Score =  132 bits (331), Expect = 1e-31
Identities = 85/264 (32%), Positives = 114/264 (43%), Gaps = 35/264 (13%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5117




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22262




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31919




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2557_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2557
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4253
                           PA3623_tr
                           translation of PA3623
                           297
                           98.31
                           98.65
                           0
                           1520.0
     

     
     
125165
                           gb|AAG07011.1|AE004782_9
                           (AE004782) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           297
                           98.31
                           98.65
                           0
                           1520.0
     

     
     
125166
                           dbj|BAA05130.1|
                           (D26134) unnamed protein product [Pseudomonas aeruginosa]
                           297
                           98.31
                           98.65
                           0
                           1520.0
     

     
     
125167
                           gb|AAO55084.1|
                           (AE016861) lipoprotein NlpD, putative [Pseudomonas syringae pv. tomato str. DC3000]
                           307
                           60.26
                           70.68
                           29
                           887.0
     

     
     
125169
                           gb|AAN67243.1|AE016351_5
                           (AE016780) lipoprotein NlpD [Pseudomonas putida KT2440]
                           307
                           59.93
                           66.77
                           55
                           876.0
     

     






      

          
GC ORFID: 45559How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3623Glimmer Score: 

          
Start: 3455838Stop: 3454945

          
Length: 894


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3623 translation of PA3623Homolog Bit Score 590.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4652 (ORF: BLASTX 351.0), t_PA4924 (ORF: BLASTX 212.0), t_PA3623 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGATAAGGGGGAAGGATTGAGGCTAGCAGCGACCCTGCGGCAATGGACTCGGCTCTACGGTGGCTGCCAC 
CTGTTGCTCGGGGCCGTCGTCTGTTCCCTTCTCGCCGCCTGTTCGTCGTCGCCTCCCGGCGGGGTCAAGGTC 
GTCGATCGCAACGGTTCCGCGCCTGCCGCTGCGCGGCGTACGCCGGTCACCAGCGGGCAGTACATCGTGCGC 
CGCGGCGACACCCTGTATTCCATTGCCTTCCGCTTCGGCTGGGACTGGAAAGCCCTGGCCGCGCGCAATGGC 
ATCGCGCCGCCCTATACCATCCAGGTCGGTCAAGCTATCCAATTTGGTGGGCGGGCACCGGCGCAACCGTCC 
GTCGCGAAAAACACGCCGGTCGTCGCTCCGCCCGTGGCGACCAAGCCTGCCCCGGTTCCACCCGCTGTTAGT 
ACGTCGGTACCTGCCAAGCCCGCACCGGCTCCGGCCTCGACCACGACCCCACCCAGCAGCGGCGCGACTCCC 
GTCGTTGCGGGGCCTGCGGTGGGCGGTTGGGCATGGCCTGCGAGCGGTAGTCTGATCGGCCGTTTTGCCTCA 
AACGGAAGTTTGAATAAAGGGATTGATATAGCCGGTCAATTGGGCCAGCCTGTCCTGGCTGCGTCTGGTGGG 
ACCGTTGTATACGCCGGTAGTGGTTTGCGGGGCTACGGCGAGTTGGTCATCATCAAACACAACGAGACCTAC 
GTGAGTGCCTACGGTCACAACCGCAGGCTGCTGGTGCGGGAAGGGCAACAGGTCAAGGTAGGGCAATCGATT 
GCCGAGATGGGCTCCACAGGAACCGATCGGGTGAAGCTGCACTTCGAGATTCGCCGCCAGGGTAAGCCTGTC 
GATCCACTGCAATATTTGCCACGTCGCTGA