ViewGene
Locus Name:
GeneID:
Location:

GeneID:1246
TrivialName: PA14_20190
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_20190
PAO1 Ortholog Locus:PA3393
Sequence Length:1287
Protein Length:428
Start: 1740357
Stop: 1739071
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06781.1|AE004760_9 (AE004760) NosD protein [Pseudomonas aeruginosa PAO1]
Identities = 422/428 (98%), Positives = 425/428 (99%)
Sequence:
TTGATCCACTCAGCGCGGTCGATGGCCGGGCGCCGGGCGGGACCGCTCCTCGCCCTGCTCCTGCTCGGCCTC
GCCACGGCCCGCGCGGAGCCGGTCGACGGCCTGCCGCTGCGGGCCGACGGCGATGGCCGCTGGAGCCTGGCG
GCGGGCCGCTACGCCGGCAACTTCGTCATCGACCGACCGCTGCACCTGCGCTGCGAGGCCGGCGCCGAACTG
GACGGCGGCGGCCACGGCAGCCTGCTGACCCTGACCAGCCCCGGGATCACCGTCGAGGGCTGCCGGCTGCGC
AACTGGGGGCGCAACCTGACCGAACTCGACGCCGCGATCTTCGTCGGCAAGGCCGCCAGCGGCGCCGTGATC
CGCGGCAACGACCTGCGCGGCGCGGGCTTCGGCGTCTGGCTCGACGCCACGGCGGGCGCGCAGGTGCTcGAC
AACCGCATCGAGGGCGACGAAAGCGTGCGCTCCCaggATCGCGGCAACGGCATCCACCTCTATGCGGTGAAG
GACGCCCTGgtCCGCGGCAACCGGGTCAGCCACACCcGCGACGGGGtctACATCGACACTTCCAACGACAGC
AGCATCGAAGCCAACcgCttcgaggagCTGCGCTACGGCGTGCACTACATGTTCACCCACAACAGCCGGGTG
ATCGACAACCTGACCCGGCGCACCCGCACCGGCTACGCGCTGATGCAGAGCCGCAAGCTGACCGTGACCGGC
AACCGCTCCATCGACGACGAGAACTACGGCATCCTGATGAACTACATCACCTACTCGACCCTGGCCGGCAAC
CGCGTCGAGGGCGTGCGCAGCGGCAGCACCGGTGACGCGATGATCTCCGGCGCCGAGGGCAAGGCGCTGTTC
ATCTACAACTCGCTGTTCAACCGCATCGAAGGCAACAGCTTCGCCGACAGCGCCCTGGGCATCCACCTCACC
GCCGGCTCGGAGGACAATCGCATCGCCGGCAACGCCTTCATAGGCAACCGCCAGCAGGTCAAGTACGTCGCC
AACCGCGAGCAGGAGTGGTCCGCCGACGGCCGCGGCAACTACTGGAGCGACTACCTGGGCTGGGACCGCGAC
GACGACGGTCTCGGCGACGTCGCCTACGAGCCCAACGACAACGTCGACCGGCTGATCTGGCTGTACCCGCAG
GTACGCCTGCTGTTGAACAGCCCGAGCATCGAGCTGTTGCGCTGGGTCCAGCGCGCCTTCCCGGTGGTGCGC
TCGCCCGGCGTGCGCGACAGCCATCCGCTGATGCGGATGCCCGCCGCGGAGCCGAGGCCATGA
Translation:
MIHSARSMAGRRAGPLLALLLLGLATARAEPVDGLPLRADGDGRWSLAAGRYAGNFVIDRPLHLRCEAGAEL
DGGGHGSLLTLTSPGITVEGCRLRNWGRNLTELDAAIFVGKAASGAVIRGNDLRGAGFGVWLDATAGAQVLD
NRIEGDESVRSQDRGNGIHLYAVKDALVRGNRVSHTRDGVYIDTSNDSSIEANRFEELRYGVHYMFTHNSRV
IDNLTRRTRTGYALMQSRKLTVTGNRSIDDENYGILMNYITYSTLAGNRVEGVRSGSTGDAMISGAEGKALF
IYNSLFNRIEGNSFADSALGIHLTAGSEDNRIAGNAFIGNRQQVKYVANREQEWSADGRGNYWSDYLGWDRD
DDGLGDVAYEPNDNVDRLIWLYPQVRLLLNSPSIELLRWVQRAFPVVRSPGVRDSHPLMRMPAAEPRP*
AnnotationID:1255GeneID:1246
AnnotatorUID: diggins
Modification Date/Time: 2005-04-18 08:08:45
Gene Name:nosD
Confidence Code:2
GeneProduct:copper ABC transporter, periplasmic copper-binding protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam05048,COG3420
Secondary Functional Category(ies):energy metabolism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAG34387.1|AF197468_3 (AF197468) NosD [Pseudomonas fluorescens]
          Length = 437

 Score =  573 bits (1478), Expect = e-163
 Identities = 272/411 (66%), Positives = 328/411 (79%)

>dbj|BAC45581.1| (AP005936) periplasmic copper-binding precursor [Bradyrhizobium
           japonicum USDA 110]
          Length = 453

 Score =  333 bits (855), Expect = 9e-91
 Identities = 186/440 (42%), Positives = 255/440 (57%), Gaps = 32/440 (7%)








 
Structural Features:
pfam05048, NosD, Periplasmic copper-binding protein (NosD).
CD-Length = 310 residues, 100.0% aligned
Score =  480 bits (1236), Expect = 2e-136
Identities = 198/311 (63%), Positives = 235/311 (75%), Gaps = 1/311 (0%)

COG3420, NosD, Nitrous oxidase accessory protein 
[Inorganic ion transport and metabolism]
CD-Length = 408 residues,  99.8% aligned
Score =  549 bits (1415), Expect = 3e-157
Identities = 219/420 (52%), Positives = 282/420 (67%), Gaps = 13/420 (3%)







   
Genomic Context:






   
Comment:


















    ReferenceID:14315




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19638




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32170




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1246_cdd.html


    		




 
URL:

















    ReferenceID:34049




  
Author/Investigator(s):
        Velasco L, Mesa S, Xu CA, Delgado MJ, Bedmar EJ.





  
Title:
        Molecular characterization of nosRZDFYLX genes coding for denitrifying nitrous oxide reductase of Bradyrhizobium japonicum.




  
PubMed:
        15028871


MedLine:
        




    
Source:
Antonie Van Leeuwenhoek. 2004 Apr;85(3):229-35.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15028871

















    ReferenceID:34050




  
Author/Investigator(s):
        Honisch U, Zumft WG.





  
Title:
        Operon structure and regulation of the nos gene region of Pseudomonas stutzeri, encoding an ABC-Type ATPase for maturation of nitrous oxide reductase.




  
PubMed:
        12618453


MedLine:
        




    
Source:
J Bacteriol. 2003 Mar;185(6):1895-902.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12618453

















    ReferenceID:34051




  
Author/Investigator(s):
        Hoeren FU, Berks BC, Ferguson SJ, McCarthy JE.





  
Title:
        Sequence and expression of the gene encoding the respiratory nitrous-oxide reductase from Paracoccus denitrificans. New and conserved structural and regulatory motifs.




  
PubMed:
        8243476


MedLine:
        




    
Source:
Eur J Biochem. 1993 Nov 15;218(1):49-57.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8243476

















    ReferenceID:34052




  
Author/Investigator(s):
        Zumft WG, Viebrock-Sambale A, Braun C.





  
Title:
        Nitrous oxide reductase from denitrifying Pseudomonas stutzeri. Genes for copper-processing and properties of the deduced products, including a new member of the family of ATP/GTP-binding proteins.




  
PubMed:
        2170125


MedLine:
        




    
Source:
Eur J Biochem. 1990 Sep 24;192(3):591-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2170125









           
Homologs By Global Alignment 

           

       



     
Gene ID:1246
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2264
                           PA3393_tr
                           translation of PA3393
                           428
                           98.59
                           99.29
                           0
                           2209.0
     

     
     
74121
                           gb|AAG06781.1|AE004760_9
                           (AE004760) NosD protein [Pseudomonas aeruginosa PAO1]
                           428
                           98.36
                           99.29
                           0
                           2207.0
     

     
     
74122
                           dbj|BAC00875.1|
                           (AB054991) NosD [Pseudomonas sp. MT-1]
                           438
                           66.43
                           76.71
                           13
                           1518.0
     

     
     
74124
                           emb|CAA37715.1|
                           (X53676) nosD [Pseudomonas stutzeri]
                           436
                           62.61
                           75.68
                           8
                           1452.0
     

     
     
74123
                           gb|AAG34387.1|AF197468_3
                           (AF197468) NosD [Pseudomonas fluorescens]
                           446
                           62.33
                           74.88
                           27
                           1474.0
     

     






      

          
GC ORFID: 44248How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3393Glimmer Score: 

          
Start: 3213575Stop: 3214861

          
Length: 1287


          
Start Codon: TTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3393 translation of PA3393Homolog Bit Score 855.0

          
Other Homologs:  t_PA3393 (ORF: GLIMMER)

          
GC ORF Sequence

           
TTGATCCACTCAGCGCGGTCGATGGCCGGGCGCCGGGCGGGACCGCTCCTCGCCCTGCTCCTGCTCGGCCTC 
GCCACGGCCCGCGCGGAGCCGGTCGACGGCCTGCCGCTGCGGGCCGACGGCGATGGCCGCTGGAGCCTGGCG 
GCGGGCCGCTACGCCGGCAACTTCGTCATCGACCGACCGCTGCACCTGCGCTGCGAGGCCGGCGCCGAACTG 
GACGGCGGCGGCCACGGCAGCCTGCTGACCCTGACCAGCCCCGGGATCACCGTCGAGGGCTGCCGGCTGCGC 
AACTGGGGGCGCAACCTGACCGAACTCGACGCCGCGATCTTCGTCGGCAAGGCCGCCAGCGGCGCCGTGATC 
CGCGGCAACGACCTGCGCGGCGCGGGCTTCGGCGTCTGGCTCGACGCCACGGCGGGCGCGCAGGTGCTcGAC 
AACCGCATCGAGGGCGACGAAAGCGTGCGCTCCCaggATCGCGGCAACGGCATCCACCTCTATGCGGTGAAG 
GACGCCCTGgtCCGCGGCAACCGGGTCAGCCACACCcGCGACGGGGtctACATCGACACTTCCAACGACAGC 
AGCATCGAAGCCAACcgCttcgaggagCTGCGCTACGGCGTGCACTACATGTTCACCCACAACAGCCGGGTG 
ATCGACAACCTGACCCGGCGCACCCGCACCGGCTACGCGCTGATGCAGAGCCGCAAGCTGACCGTGACCGGC 
AACCGCTCCATCGACGACGAGAACTACGGCATCCTGATGAACTACATCACCTACTCGACCCTGGCCGGCAAC 
CGCGTCGAGGGCGTGCGCAGCGGCAGCACCGGTGACGCGATGATCTCCGGCGCCGAGGGCAAGGCGCTGTTC 
ATCTACAACTCGCTGTTCAACCGCATCGAAGGCAACAGCTTCGCCGACAGCGCCCTGGGCATCCACCTCACC 
GCCGGCTCGGAGGACAATCGCATCGCCGGCAACGCCTTCATAGGCAACCGCCAGCAGGTCAAGTACGTCGCC 
AACCGCGAGCAGGAGTGGTCCGCCGACGGCCGCGGCAACTACTGGAGCGACTACCTGGGCTGGGACCGCGAC 
GACGACGGTCTCGGCGACGTCGCCTACGAGCCCAACGACAACGTCGACCGGCTGATCTGGCTGTACCCGCAG 
GTACGCCTGCTGTTGAACAGCCCGAGCATCGAGCTGTTGCGCTGGGTCCAGCGCGCCTTCCCGGTGGTGCGC 
TCGCCCGGCGTGCGCGACAGCCATCCGCTGATGCGGATGCCCGCCGCGGAGCCGAGGCCATGA