ViewGene
Locus Name:
GeneID:
Location:

GeneID:1292
TrivialName: PA14_05880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_05880
PAO1 Ortholog Locus:PA0451
Sequence Length:1332
Protein Length:443
Start: 520909
Stop: 522240
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03840.1|AE004482_7 (AE004482) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 438/443 (98%), Positives = 441/443 (99%)
Sequence:
ATGCGGATGCCGTGCCGGCTCGCGCTGGCGCTGTTGCTGTGCTTCGCCGGCCCGGCCTGTCTCGCGGCCTCC
GGACCGGTTCGGGTGCTCTCGGTGGATGGTGCGATCGGCCCGGCCAGCGCCGATTACCTGGTGCGCGGCATC
GAGCGTGCCGCCGAGGACGGCGCGCAACTGGTGGTGCTGGAACTGGACACGCCCGGCGGCCTGGACGCATCG
ATGCGGCGCATCGTCAAGGCGATCCTCGCCAGCCAGGTGCCGGTCGCCGGTTTCGTCGCGCCCAGCGGGGCG
CGGGCGGCGAGCGCCGGCACCTACATCCTGTATGCCTGCCATATCGCGGCGATGGCGCCGGGCACCAACCTC
GGCGCTGCCACCCCGGTGCGCCTGGGGACGCCGGACAAGCCCGCAGAGAAGCCCCCGGCGCGGGACGCCGAA
CCCATGGCGCGCAAGCAGGTCAACGACGCCGCCGCCTATATCCGTGGCCTCGCGCAACTGCGCGGGCGCAAC
GTCGAGTGGGCCGAGCGCGCGGTGCGCGAGGCGGTCAGCCTGGCGGCGCACGAGGCGGCGGCGCAGAGGGTG
ATCGACCTGCAGGCCCGCGACCTGCCCGACCTGCTGCGCCAGCTCGACGGCCGCAGCCTGCGCGTCGGCGAG
CGCGCGCTGACCCTGGCTACCGCCGGCGCCACGGTCGAGCGCCAGGCACCGGACTGGCGCGCGCGGTTGCTG
GCGGTGCTCACCGATCCCAGCGTGGCGCTGATCCTGATGATGATCGGCATCTACGGGCTGATCTTCGAACTG
GCCAATCCCGGCATGGCGCTGCCCGGCGTGCTCGGCGGCATCTGCCTGCTGCTCGGCCTGTACGCCCTGCAG
ATGCTGCCGCTCAACTACGCCGGGCTGGCGCTGATCGCGCTGGGCCTGGCGTTCATGGTGGGCGAGGCGTTC
GTCGCCAGCTTCGGCGTGCTCGGCATCGGCGGAATCGTCTCGTTCGTGGTCGGCGCGCTGATCCTGATCGAT
ACCGAGGTGCCCGGCTACGGCATTCCGCCCGGCCTGGTGGTGGCCCTGGCGTTGCTCAGCGCCGCGCTGATC
GTCGGTCTGCTGGGCATGGCCCTGCGTACTCGCCGGCAAGCGGTGGTAAGTGGCACCGCCGGATTGGTCGGC
AGCCTGGCGACGGTGGCGGCGGTGGATTCCGAACAACCCTGCGCAGGCTGGGTGCTGCTCCAGGGCGAGCGC
TGGCGGGTGCTCGCCGCGCGGCCGCTGGCGGTGGGCCAGCCGGTCTGGGTGCTGGCGCGCAAGGGCCTGCTC
CTGGAAGTCGCGCTGGCCGATGAAGGAGGTGGATGA
Translation:
MRMPCRLALALLLCFAGPACLAASGPVRVLSVDGAIGPASADYLVRGIERAAEDGAQLVVLELDTPGGLDAS
MRRIVKAILASQVPVAGFVAPSGARAASAGTYILYACHIAAMAPGTNLGAATPVRLGTPDKPAEKPPARDAE
PMARKQVNDAAAYIRGLAQLRGRNVEWAERAVREAVSLAAHEAAAQRVIDLQARDLPDLLRQLDGRSLRVGE
RALTLATAGATVERQAPDWRARLLAVLTDPSVALILMMIGIYGLIFELANPGMALPGVLGGICLLLGLYALQ
MLPLNYAGLALIALGLAFMVGEAFVASFGVLGIGGIVSFVVGALILIDTEVPGYGIPPGLVVALALLSAALI
VGLLGMALRTRRQAVVSGTAGLVGSLATVAAVDSEQPCAGWVLLQGERWRVLAARPLAVGQPVWVLARKGLL
LEVALADEGGG*
AnnotationID:1301GeneID:1292
AnnotatorUID: diggins
Modification Date/Time: 2005-03-25 13:01:17
Gene Name:
Confidence Code:3
GeneProduct:putative membrane-bound protease
Cell Localization:()
Synonyms:nfeD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(15) Membrane proteins
Alternate Gene Product Name:putative membrane protein necessary for nodulation competitiveness
Functional Category Confidence Code:5
COGs:pfam01957,COG1030
Secondary Functional Category(ies):posttranslational modification, protein turnover, chaperones
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65833.1|AE016211_11 (AE016774) membrane protein, putative [Pseudomonas putida KT2440]
          Length = 448

 Score =  531 bits (1367), Expect = e-150
 Identities = 283/435 (65%), Positives = 341/435 (78%), Gaps = 2/435 (0%)

>emb|CAD14505.1| (AL646061) PROBABLE TRANSMEMBRANE PROTEIN [Ralstonia solanacearum]
          Length = 470

 Score =  485 bits (1248), Expect = e-136
 Identities = 260/448 (58%), Positives = 327/448 (72%), Gaps = 20/448 (4%)






 
Structural Features:
pfam01957, NfeD, Nodulation efficiency protein D (NfeD). 
CD-Length = 424 residues,  99.8% aligned
Score =  448 bits (1154), Expect = 5e-127
Identities = 232/436 (53%), Positives = 290/436 (66%), Gaps = 15/436 (3%)

COG1030, NfeD, Membrane-bound serine protease (ClpP class) 
[Posttranslational modification, protein turnover, chaperones]
CD-Length = 436 residues,  99.8% aligned
Score =  403 bits (1038), Expect = 2e-113
Identities = 219/451 (48%), Positives = 275/451 (60%), Gaps = 24/451 (5%)







   
Genomic Context:






   
Comment:


















    ReferenceID:2587




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19729




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33773




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1292_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1292
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2353
                           PA0451_tr
                           translation of PA0451
                           443
                           98.87
                           99.54
                           0
                           2176.0
     

     
     
75629
                           gb|AAG03840.1|AE004482_7
                           (AE004482) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           443
                           98.87
                           99.54
                           0
                           2176.0
     

     
     
75630
                           gb|AAN65833.1|AE016211_11
                           (AE016774) membrane protein, putative [Pseudomonas putida KT2440]
                           449
                           63.91
                           76.83
                           7
                           1364.0
     

     
     
75631
                           emb|CAD14505.1|
                           (AL646061) PROBABLE TRANSMEMBRANE PROTEIN [Ralstonia solanacearum]
                           475
                           55.78
                           70.10
                           37
                           1258.0
     

     
     
75633
                           gb|AAC64872.1|
                           (AF034831) ORF2 [Rhizobium etli]
                           473
                           50.10
                           62.57
                           36
                           1099.0
     

     






      

          
GC ORFID: 44294How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0451Glimmer Score: 

          
Start: 6322251Stop: 6323582

          
Length: 1332


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0451 translation of PA0451Homolog Bit Score 842.0

          
Other Homologs:  t_PA0451 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGGATGCCGTGCCGGCTCGCGCTGGCGCTGTTGCTGTGCTTCGCCGGCCCGGCCTGTCTCGCGGCCTCC 
GGACCGGTTCGGGTGCTCTCGGTGGATGGTGCGATCGGCCCGGCCAGCGCCGATTACCTGGTGCGCGGCATC 
GAGCGTGCCGCCGAGGACGGCGCGCAACTGGTGGTGCTGGAACTGGACACGCCCGGCGGCCTGGACGCATCG 
ATGCGGCGCATCGTCAAGGCGATCCTCGCCAGCCAGGTGCCGGTCGCCGGTTTCGTCGCGCCCAGCGGGGCG 
CGGGCGGCGAGCGCCGGCACCTACATCCTGTATGCCTGCCATATCGCGGCGATGGCGCCGGGCACCAACCTC 
GGCGCTGCCACCCCGGTGCGCCTGGGGACGCCGGACAAGCCCGCAGAGAAGCCCCCGGCGCGGGACGCCGAA 
CCCATGGCGCGCAAGCAGGTCAACGACGCCGCCGCCTATATCCGTGGCCTCGCGCAACTGCGCGGGCGCAAC 
GTCGAGTGGGCCGAGCGCGCGGTGCGCGAGGCGGTCAGCCTGGCGGCGCACGAGGCGGCGGCGCAGAGGGTG 
ATCGACCTGCAGGCCCGCGACCTGCCCGACCTGCTGCGCCAGCTCGACGGCCGCAGCCTGCGCGTCGGCGAG 
CGCGCGCTGACCCTGGCTACCGCCGGCGCCACGGTCGAGCGCCAGGCACCGGACTGGCGCGCGCGGTTGCTG 
GCGGTGCTCACCGATCCCAGCGTGGCGCTGATCCTGATGATGATCGGCATCTACGGGCTGATCTTCGAACTG 
GCCAATCCCGGCATGGCGCTGCCCGGCGTGCTCGGCGGCATCTGCCTGCTGCTCGGCCTGTACGCCCTGCAG 
ATGCTGCCGCTCAACTACGCCGGGCTGGCGCTGATCGCGCTGGGCCTGGCGTTCATGGTGGGCGAGGCGTTC 
GTCGCCAGCTTCGGCGTGCTCGGCATCGGCGGAATCGTCTCGTTCGTGGTCGGCGCGCTGATCCTGATCGAT 
ACCGAGGTGCCCGGCTACGGCATTCCGCCCGGCCTGGTGGTGGCCCTGGCGTTGCTCAGCGCCGCGCTGATC 
GTCGGTCTGCTGGGCATGGCCCTGCGTACTCGCCGGCAAGCGGTGGTAAGTGGCACCGCCGGATTGGTCGGC 
AGCCTGGCGACGGTGGCGGCGGTGGATTCCGAACAACCCTGCGCAGGCTGGGTGCTGCTCCAGGGCGAGCGC 
TGGCGGGTGCTCGCCGCGCGGCCGCTGGCGGTGGGCCAGCCGGTCTGGGTGCTGGCGCGCAAGGGCCTGCTC 
CTGGAAGTCGCGCTGGCCGATGAAGGAGGTGGATGA