ViewGene
Locus Name:
GeneID:
Location:

GeneID:447
TrivialName: PA14_29990
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_29990
PAO1 Ortholog Locus:PA2639
Sequence Length:1782
Protein Length:593
Start: 2597945
Stop: 2596164
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06027.1|AE004692_6 (AE004692) NADH dehydrogenase I chain C,D [Pseudomonas aeruginosa PAO1]
Identities = 593/593 (100%), Positives = 593/593 (100%)
Sequence:
ATGACTGCAGACTCCGCTCTGTACATCCCGCCTTACAAGGCAGACGACCAGGATATCGTCGTCGAACTGAAT
TCCCGCTTTGGCGCCGAGACCTTCACCGTCCAGCCCACCCGTACCGGCATGCCGGTGCTCTGGGTCCCGCGC
GAAAGACTGATCGAAGTCCTGACCTTCCTCCGTCAGGTACCCAAGCCCTACGTGATGCTCTACGACCTGCAC
GGCGTCGACGAGCGGCTGCGCACCCATCGCCGCGGCCTGCCGAGCGCCGACTTCAGCGTGTTCTACCACCTG
ATGTCGCTGGAGCGTAATAGTGACGTGATGATCAAGGTCGCCTTGTCCGAGCGCGACCTCAACCTGCCCACC
GCCACCCGTATCTGGCCCAACGCCAACTGGTACGAGCGCGAAGTGTGGGACATGTACGGCATCACCTTCACC
GGCCACCCGCACCTGACCCGCATGCTGATGCCGCCGACCTGGCAGGGCCATCCGCTGCGCAAGGACTACCCG
GCGCGCGCCACCGAGTTCGATCCCTACTCCCTGTCCGCCGCCAAGCAGGACCTGGAGCAGGAGGCCCTGCGC
TTCAAGCCGGAAGACTGGGGCATGAAGCGCCACGGCGAGAACGAGGACTACATGTTCCTCAACCTCGGCCCG
AACCACCCGTCCGCCCACGGCGCGTTCCGCATCATCCTGCAACTGGACGGCGAGGAGATCATCGACTGCGTC
CCGGAGATCGGCTACCACCACCGCGGCGCCGAGAAGATGGCCGAGCGCCAGTCCTGGCACAGTTTCATCCCC
TACACCGACCGCATCGACTACCTCGGCGGGGTGATGAACAACCTGCCCTACGTACTCTCGGTGGAGAAGCTC
GCCGGGATCAAGGTGCCGCAGCGGGTCGACGTGATCCGGATCATGATGGCGGAGTTCTTCCGTATCCTGAAC
CACCTGCTGTACCTGGGCACCTATATCCAGGACGTCGGCGCCATGACCCCGGTGTTCTTCACCTTCACCGAC
CGCCAGCGCGCCTACAAGGTGGTCGAGGCCATCACCGGCTTCCGCCTGCACCCGGCCTGGTACCGCATCGGC
GGCGTCGCCCACGACCTGCCGCGCGGCTGGGACAAGCTGGTCCGCGAGTTCCTCGACTGGATGCCCAAGCGC
CTCGACGAGTACGAGACCGCGGCCCTGAAGAACAGCATCCTGCGCGGCCGGACCATCGGCGTCGCCCAGTAC
AACACCAAGGAAGCCCTCGAGTGGGGCACCACCGGCGCCGGCCTGCGCGCCACCGGTTGCGACTTCGACCTG
CGCAAGGCCCGCCCCTACTCCGGCTACGAGAACTTCGAGTTCGAGGTACCGCTGGCCCACAACGGCGACGCC
TACGACCGCTGCATGGTCAAGATGGGCGAGATGCGCCAGAGCCTGCGGATCATCGAACAGTGCCTGAAGAAC
ATGCCGGAAGGCCCGTACAAGGCCGACCATCCGCTGACCACGCCGCCGCCGAAAGAACGCACGCTGCAACAC
ATCGAAACCCTGATCACCCACTTCCTGCAGGTTTCCTGGGGCCCGGTCATGCCGGCCAACGAAGCCTTCCAG
ATGATCGAGGCGACCAAGGGTATCAACAGCTACTACCTGACCAGCGACGGCAGCACCATGAGCTACCGCACG
CGTATCCGGACGCCCAGCTTCGCGCACCTGCAACAGATCCCCTCGGTGATCAACGGCAGCATGATCGCGGAC
CTGATCGCCTACCTGGGTAGCATCGATTTCGTTATGGCTGACGTGGACCGCTGA
Translation:
MTADSALYIPPYKADDQDIVVELNSRFGAETFTVQPTRTGMPVLWVPRERLIEVLTFLRQVPKPYVMLYDLH
GVDERLRTHRRGLPSADFSVFYHLMSLERNSDVMIKVALSERDLNLPTATRIWPNANWYEREVWDMYGITFT
GHPHLTRMLMPPTWQGHPLRKDYPARATEFDPYSLSAAKQDLEQEALRFKPEDWGMKRHGENEDYMFLNLGP
NHPSAHGAFRIILQLDGEEIIDCVPEIGYHHRGAEKMAERQSWHSFIPYTDRIDYLGGVMNNLPYVLSVEKL
AGIKVPQRVDVIRIMMAEFFRILNHLLYLGTYIQDVGAMTPVFFTFTDRQRAYKVVEAITGFRLHPAWYRIG
GVAHDLPRGWDKLVREFLDWMPKRLDEYETAALKNSILRGRTIGVAQYNTKEALEWGTTGAGLRATGCDFDL
RKARPYSGYENFEFEVPLAHNGDAYDRCMVKMGEMRQSLRIIEQCLKNMPEGPYKADHPLTTPPPKERTLQH
IETLITHFLQVSWGPVMPANEAFQMIEATKGINSYYLTSDGSTMSYRTRIRTPSFAHLQQIPSVINGSMIAD
LIAYLGSIDFVMADVDR*
AnnotationID:456GeneID:447
AnnotatorUID: diggins
Modification Date/Time: 2005-04-29 11:11:29
Gene Name:nuoD
Confidence Code:2
GeneProduct:NADH dehydrogenase I chain C,D
Cell Localization:()
Synonyms:nuoC
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0649
Secondary Functional Category(ies):
EC Number:1.6.5.3
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO56845.1| (AE016868) NADH dehydrogenase I, C/D subunit [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 593

 Score = 1112 bits (2876), Expect = 0.0
 Identities = 519/593 (87%), Positives = 565/593 (95%)

>gb|AAM85201.1|AE013766_4 (AE013766) NADH dehydrogenase I chain C, D [Yersinia pestis KIM]
          Length = 598

 Score =  993 bits (2568), Expect = 0.0
 Identities = 454/578 (78%), Positives = 529/578 (91%)

>gb|AAC75346.1| (AE000317) NADH dehydrogenase I chain C, D [Escherichia coli K12]
          Length = 600

 Score =  969 bits (2506), Expect = 0.0
 Identities = 445/579 (76%), Positives = 522/579 (90%), Gaps = 1/579 (0%)






 
Structural Features:
COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7 
[Energy production and conversion]
CD-Length = 398 residues, 100.0% aligned
Score =  599 bits (1546), Expect = 3e-172
Identities = 219/398 (55%), Positives = 281/398 (70%)






   
Genomic Context:






   
Comment:


















    ReferenceID:897




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18039




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33224




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:447_cdd.html


    		




 
URL:

















    ReferenceID:34574




  
Author/Investigator(s):
        Camacho Carvajal MM, Wijfjes AH, Mulders IH, Lugtenberg BJ, Bloemberg GV.





  
Title:
        Characterization of NADH dehydrogenases of Pseudomonas fluorescens WCS365 and their role in competitive root colonization.




  
PubMed:
        12118882


MedLine:
        




    
Source:
Mol Plant Microbe Interact. 2002 Jul;15(7):662-71.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12118882

















    ReferenceID:34586




  
Author/Investigator(s):
        Clark MA, Baumann L, Baumann P.





  
Title:
        Buchnera aphidicola (endosymbiont of aphids) contains nuoC(D) genes that encode subunits of NADH dehydrogenase.




  
PubMed:
        9216887


MedLine:
        




    
Source:
Curr Microbiol. 1997 Aug;35(2):122-3.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9216887









           
Homologs By Global Alignment 

           

       



     
Gene ID:447
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
765
                           PA2639_tr
                           translation of PA2639
                           593
                           99.99
                           99.99
                           0
                           3177.0
     

     
     
33733
                           gb|AAG06027.1|AE004692_6
                           (AE004692) NADH dehydrogenase I chain C,D [Pseudomonas aeruginosa PAO1]
                           593
                           99.99
                           99.99
                           0
                           3177.0
     

     
     
33734
                           gb|AAO56845.1|
                           (AE016868) NADH dehydrogenase I, C/D subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           593
                           87.52
                           95.27
                           0
                           2876.0
     

     
     
33735
                           gb|AAN69704.1|AE016606_7
                           (AE016789) NADH dehydrogenase I, C,D subunit [Pseudomonas putida KT2440]
                           593
                           87.01
                           94.60
                           0
                           2846.0
     

     
     
33736
                           gb|AAM85201.1|AE013766_4
                           (AE013766) NADH dehydrogenase I chain C, D [Yersinia pestis KIM]
                           600
                           76.33
                           89.33
                           9
                           2565.0
     

     






      

          
GC ORFID: 43449How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2639Glimmer Score: 

          
Start: 2355981Stop: 2357762

          
Length: 1782


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2639 translation of PA2639Homolog Bit Score 1228.0

          
Other Homologs:  psyr_15may02_Scaffold17_revised_gene2766 (ORF: BLASTX 1110.0), t_PA2639 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACTGCAGACTCCGCTCTGTACATCCCGCCTTACAAGGCAGACGACCAGGATATCGTCGTCGAACTGAAT 
TCCCGCTTTGGCGCCGAGACCTTCACCGTCCAGCCCACCCGTACCGGCATGCCGGTGCTCTGGGTCCCGCGC 
GAAAGACTGATCGAAGTCCTGACCTTCCTCCGTCAGGTACCCAAGCCCTACGTGATGCTCTACGACCTGCAC 
GGCGTCGACGAGCGGCTGCGCACCCATCGCCGCGGCCTGCCGAGCGCCGACTTCAGCGTGTTCTACCACCTG 
ATGTCGCTGGAGCGTAATAGTGACGTGATGATCAAGGTCGCCTTGTCCGAGCGCGACCTCAACCTGCCCACC 
GCCACCCGTATCTGGCCCAACGCCAACTGGTACGAGCGCGAAGTGTGGGACATGTACGGCATCACCTTCACC 
GGCCACCCGCACCTGACCCGCATGCTGATGCCGCCGACCTGGCAGGGCCATCCGCTGCGCAAGGACTACCCG 
GCGCGCGCCACCGAGTTCGATCCCTACTCCCTGTCCGCCGCCAAGCAGGACCTGGAGCAGGAGGCCCTGCGC 
TTCAAGCCGGAAGACTGGGGCATGAAGCGCCACGGCGAGAACGAGGACTACATGTTCCTCAACCTCGGCCCG 
AACCACCCGTCCGCCCACGGCGCGTTCCGCATCATCCTGCAACTGGACGGCGAGGAGATCATCGACTGCGTC 
CCGGAGATCGGCTACCACCACCGCGGCGCCGAGAAGATGGCCGAGCGCCAGTCCTGGCACAGTTTCATCCCC 
TACACCGACCGCATCGACTACCTCGGCGGGGTGATGAACAACCTGCCCTACGTACTCTCGGTGGAGAAGCTC 
GCCGGGATCAAGGTGCCGCAGCGGGTCGACGTGATCCGGATCATGATGGCGGAGTTCTTCCGTATCCTGAAC 
CACCTGCTGTACCTGGGCACCTATATCCAGGACGTCGGCGCCATGACCCCGGTGTTCTTCACCTTCACCGAC 
CGCCAGCGCGCCTACAAGGTGGTCGAGGCCATCACCGGCTTCCGCCTGCACCCGGCCTGGTACCGCATCGGC 
GGCGTCGCCCACGACCTGCCGCGCGGCTGGGACAAGCTGGTCCGCGAGTTCCTCGACTGGATGCCCAAGCGC 
CTCGACGAGTACGAGACCGCGGCCCTGAAGAACAGCATCCTGCGCGGCCGGACCATCGGCGTCGCCCAGTAC 
AACACCAAGGAAGCCCTCGAGTGGGGCACCACCGGCGCCGGCCTGCGCGCCACCGGTTGCGACTTCGACCTG 
CGCAAGGCCCGCCCCTACTCCGGCTACGAGAACTTCGAGTTCGAGGTACCGCTGGCCCACAACGGCGACGCC 
TACGACCGCTGCATGGTCAAGATGGGCGAGATGCGCCAGAGCCTGCGGATCATCGAACAGTGCCTGAAGAAC 
ATGCCGGAAGGCCCGTACAAGGCCGACCATCCGCTGACCACGCCGCCGCCGAAAGAACGCACGCTGCAACAC 
ATCGAAACCCTGATCACCCACTTCCTGCAGGTTTCCTGGGGCCCGGTCATGCCGGCCAACGAAGCCTTCCAG 
ATGATCGAGGCGACCAAGGGTATCAACAGCTACTACCTGACCAGCGACGGCAGCACCATGAGCTACCGCACG 
CGTATCCGGACGCCCAGCTTCGCGCACCTGCAACAGATCCCCTCGGTGATCAACGGCAGCATGATCGCGGAC 
CTGATCGCCTACCTGGGTAGCATCGATTTCGTTATGGCTGACGTGGACCGCTGA