ViewGene
Locus Name:
GeneID:
Location:

GeneID:1278
TrivialName: PA14_29970
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_29970
PAO1 Ortholog Locus:PA2641
Sequence Length:1350
Protein Length:449
Start: 2595665
Stop: 2594316
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06029.1|AE004692_8 (AE004692) NADH dehydrogenase I chain F [Pseudomonas aeruginosa PAO1]
Identities = 418/449 (93%), Positives = 421/449 (93%), Gaps = 1/449 (0%)
Sequence:
ATGACCCTTACCTCCATTGGTCCGGCCAACCGCATGGCGCGTTCGGCGGAAACCCATCCGCTGACCTGGCGC
CTGCGCGAAGACGCCCAGCCCGTCTGGCTCGAGGAATATCAGAGCAAGGACGGCTATGCCGCGGCGCGCAAG
GCGCTGACCCAGATGGCCCAGGACGACATCGTCCAGACCGTCAAGGACTCCGGCCTCAAGGGCCGCGGCGGC
GCGGGCTTCCCCACCGGCGTGAAGTGGGGCCTGATGCCGAAGGACGAGTCGCTGAACATCCGCTACCTGCTG
TGCAACGCGGACGAGATGGAGCCGAACACCTGGAAGGACCGCATGCTCATGGAGCAGCTGCCGCACCTGCTG
GTGGAAGGCATGCTGATTTCCGCGCGTGCGCTGAAGGCCTACCGCGGCTACATCTTCCTGCGCGGCGAATAC
GTCGACGCGGCGCGCAACCTCAACCGCGCCATCGACGAAGCCAAGGCCGCCGGCCTGCTCGGCAAGAACATC
CTCGGCAGCGGCTTCGATTTCGAGCTGTTCGTCCACACCGGTGCCGGCCGCTACATCTGCGGCGAAGAGACC
GCGCTGATCAACTCGCTGGAAGGCCGCCGCGCCAACCCGCGTTCCAAACCGCCCTTCCCTGCCGCCGTCGGC
GTCTGGGGCAAGCCGACCTGCGTGAACAACGTGGAGACGCTGTGCAACGTGCCGGCCATCGTCGGCAACGGC
GTGGACTGGTACAAGACCCTGGCCCGCCCCGGCAGCGAAGACATGGGCACCAAGCTGATGGGCTTCTCCGGC
AAGGTGAAGAACCCCGGCCTGTGGGAACTGCCGTTCGGCGTCAGCGCCCGCGAGCTGTTCGAGGACTACGCC
GGCGGCATGCGCGACGGCTTCCAGCTCAAGGCCTGGCAGCccggcGGCGCcggtAcCGGCTTCCTGCTCCcg
GAGCACCTGGATGCGCAGATGTTCGccggcgGCATCGCcaaggTCggCAcccGGATGGGCAcCGGCCTggcc
catggcggtgGACGACAGCATCaaCatggtttcccctGCTGCGCAACATggaagagttcttcGCCcgcgagT
cctgcggctggtgcacccCcctgccgCgacggcctGccgtggagcgtgaagctgcTGCGCgccctagAgcgt
ggcgaAGGccAGCCCGGCgacctcgAGACCcTCaaGcaactggtCAaCttcctCggcCCAGGCAAgaccttC
TGCGCCCATGCGCCGGGAGCCGTCGAGCCGCTGGGCAGCGCccTCAAGTATTTCCGTGCCGAATTCGAGGCG
GGCATCTCCCGCCAGCCTtCGGCCGCGCCGCGCCCGGCAACGGTCGGCGCCTGA
Translation:
MTLTSIGPANRMARSAETHPLTWRLREDAQPVWLEEYQSKDGYAAARKALTQMAQDDIVQTVKDSGLKGRGG
AGFPTGVKWGLMPKDESLNIRYLLCNADEMEPNTWKDRMLMEQLPHLLVEGMLISARALKAYRGYIFLRGEY
VDAARNLNRAIDEAKAAGLLGKNILGSGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPAAVG
VWGKPTCVNNVETLCNVPAIVGNGVDWYKTLARPGSEDMGTKLMGFSGKVKNPGLWELPFGVSARELFEDYA
GGMRDGFQLKAWQPGGAGTGFLLPEHLDAQMFAGGIAKVGTRMGTGLAHGGGRQHQHGFPCCATWKSSSPAS
PAAGAPPCRDGLPWSVKLLRALERGEGQPGDLETLKQLVNFLGPGKTFCAHAPGAVEPLGSALKYFRAEFEA
GISRQPSAAPRPATVGA*
AnnotationID:1287GeneID:1278
AnnotatorUID: diggins
Modification Date/Time: 2005-04-29 11:11:03
Gene Name:nuoF
Confidence Code:2
GeneProduct:NADH dehydrogenase I chain F
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1894,pfam01512
Secondary Functional Category(ies):
EC Number:1.6.5.3
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO56847.1| (AE016868) NADH dehydrogenase I, F subunit [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 452

 Score =  758 bits (1957), Expect = 0.0
 Identities = 371/453 (81%), Positives = 396/453 (87%), Gaps = 5/453 (1%)

>gb|AAN69706.1|AE016606_9 (AE016789) NADH dehydrogenase I, F subunit [Pseudomonas putida
           KT2440]
          Length = 453

 Score =  754 bits (1948), Expect = 0.0
 Identities = 367/444 (82%), Positives = 394/444 (88%), Gaps = 1/444 (0%)

>gb|AAN54090.1|AE015546_7 (AE015546) NADH dehydrogenase I, F subunit [Shewanella oneidensis
           MR-1]
          Length = 461

 Score =  721 bits (1860), Expect = 0.0
 Identities = 348/432 (80%), Positives = 374/432 (86%), Gaps = 1/432 (0%)








 
Structural Features:
COG1894, NuoF, NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit 
[Energy production and conversion]
CD-Length = 424 residues,  97.4% aligned
Score =  559 bits (1442), Expect = 2e-160
Identities = 224/430 (52%), Positives = 283/430 (65%), Gaps = 29/430 (6%)

pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd subunit.
CD-Length = 262 residues,  99.6% aligned
Score =  352 bits (905), Expect = 4e-98
Identities = 158/264 (59%), Positives = 190/264 (71%), Gaps = 3/264 (1%)







   
Genomic Context:






   
Comment:


















    ReferenceID:2559




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19702




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33222




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1278_cdd.html


    		




 
URL:

















    ReferenceID:34576




  
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:34588




  
Author/Investigator(s):
        Herter SM, Schiltz E, Drews G.





  
Title:
        Protein and gene structure of the NADH-binding fragment of Rhodobacter capsulatus NADH:ubiquinone oxidoreductase.




  
PubMed:
        9219542


MedLine:
        




    
Source:
Eur J Biochem. 1997 Jun 15;246(3):800-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9219542









           
Homologs By Global Alignment 

           

       



     
Gene ID:1278
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2325
                           PA2641_tr
                           translation of PA2641
                           459
                           91.93
                           92.59
                           21
                           2190.0
     

     
     
75052
                           gb|AAG06029.1|AE004692_8
                           (AE004692) NADH dehydrogenase I chain F [Pseudomonas aeruginosa PAO1]
                           459
                           91.93
                           92.59
                           21
                           2190.0
     

     
     
75053
                           gb|AAO56847.1|
                           (AE016868) NADH dehydrogenase I, F subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           465
                           80.86
                           86.45
                           29
                           1972.0
     

     
     
75055
                           gb|AAN69706.1|AE016606_9
                           (AE016789) NADH dehydrogenase I, F subunit [Pseudomonas putida KT2440]
                           464
                           80.60
                           86.42
                           26
                           1959.0
     

     
     
75054
                           gb|AAF97802.1|AF281148_6
                           (AF281148) NADH dehydrogenase I subunit F [Pseudomonas fluorescens]
                           462
                           80.30
                           86.36
                           24
                           1959.0
     

     






      

          
GC ORFID: 44280How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2641Glimmer Score: 

          
Start: 2358261Stop: 2359610

          
Length: 1350


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2641 translation of PA2641Homolog Bit Score 844.0

          
Other Homologs:  psyr_15may02_Scaffold17_revised_gene2768 (ORF: BLASTX 760.0), t_PA2641 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCCTTACCTCCATTGGTCCGGCCAACCGCATGGCGCGTTCGGCGGAAACCCATCCGCTGACCTGGCGC 
CTGCGCGAAGACGCCCAGCCCGTCTGGCTCGAGGAATATCAGAGCAAGGACGGCTATGCCGCGGCGCGCAAG 
GCGCTGACCCAGATGGCCCAGGACGACATCGTCCAGACCGTCAAGGACTCCGGCCTCAAGGGCCGCGGCGGC 
GCGGGCTTCCCCACCGGCGTGAAGTGGGGCCTGATGCCGAAGGACGAGTCGCTGAACATCCGCTACCTGCTG 
TGCAACGCGGACGAGATGGAGCCGAACACCTGGAAGGACCGCATGCTCATGGAGCAGCTGCCGCACCTGCTG 
GTGGAAGGCATGCTGATTTCCGCGCGTGCGCTGAAGGCCTACCGCGGCTACATCTTCCTGCGCGGCGAATAC 
GTCGACGCGGCGCGCAACCTCAACCGCGCCATCGACGAAGCCAAGGCCGCCGGCCTGCTCGGCAAGAACATC 
CTCGGCAGCGGCTTCGATTTCGAGCTGTTCGTCCACACCGGTGCCGGCCGCTACATCTGCGGCGAAGAGACC 
GCGCTGATCAACTCGCTGGAAGGCCGCCGCGCCAACCCGCGTTCCAAACCGCCCTTCCCTGCCGCCGTCGGC 
GTCTGGGGCAAGCCGACCTGCGTGAACAACGTGGAGACGCTGTGCAACGTGCCGGCCATCGTCGGCAACGGC 
GTGGACTGGTACAAGACCCTGGCCCGCCCCGGCAGCGAAGACATGGGCACCAAGCTGATGGGCTTCTCCGGC 
AAGGTGAAGAACCCCGGCCTGTGGGAACTGCCGTTCGGCGTCAGCGCCCGCGAGCTGTTCGAGGACTACGCC 
GGCGGCATGCGCGACGGCTTCCAGCTCAAGGCCTGGCAGCccggcGGCGCcggtAcCGGCTTCCTGCTCCcg 
GAGCACCTGGATGCGCAGATGTTCGccggcgGCATCGCcaaggTCggCAcccGGATGGGCAcCGGCCTggcc 
catggcggtgGACGACAGCATCaaCatggtttcccctGCTGCGCAACATggaagagttcttcGCCcgcgagT 
cctgcggctggtgcacccCcctgccgCgacggcctGccgtggagcgtgaagctgcTGCGCgccctagAgcgt 
ggcgaAGGccAGCCCGGCgacctcgAGACCcTCaaGcaactggtCAaCttcctCggcCCAGGCAAgaccttC 
TGCGCCCATGCGCCGGGAGCCGTCGAGCCGCTGGGCAGCGCccTCAAGTATTTCCGTGCCGAATTCGAGGCG 
GGCATCTCCCGCCAGCCTtCGGCCGCGCCGCGCCCGGCAACGGTCGGCGCCTGA