ViewGene
Locus Name:
GeneID:
Location:

GeneID:4989
TrivialName: PA14_41540
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_41540
PAO1 Ortholog Locus:PA1780
Sequence Length:327
Protein Length:108
Start: 3708550
Stop: 3708876
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05169.1|AE004603_9 (AE004603) assimilatory nitrite reductase small subunit [Pseudomonas aeruginosa PAO1]
Identities = 106/108 (98%), Positives = 108/108 (100%)
Sequence:
ATGAACTGGCTGGATATCTGCGCCCTCGATGAAATCAACCCGCTGGGCTCGCGCGTGGTCGCCGGCCCGAAA
GGCGACATCGCCATCTTCCGCGCCTCCGACGACCAGGTCTTCGCCCTCGATGACCGCTGCCCGCACAAGGGC
GGCCCGCTGTCCCAGGGCCTGATCTACGGCAAGCGAGTGGCCTGTCCGTTGCACAACTGGCAGATCGAACTG
GAGAGCGGCGAAGCCGTGGCCCCGGACCAGGGCTGCGCCCATCGCCACCCGGTGCGGGTGGAGAACGGACGG
GTGCTGCTCGGCCTGGACAGCGTGGCGCTGTGCGCCTGA
Translation:
MNWLDICALDEINPLGSRVVAGPKGDIAIFRASDDQVFALDDRCPHKGGPLSQGLIYGKRVACPLHNWQIEL
ESGEAVAPDQGCAHRHPVRVENGRVLLGLDSVALCA*
AnnotationID:4994GeneID:4989
AnnotatorUID: diggins
Modification Date/Time: 2005-04-28 13:01:00
Gene Name:nirD
Confidence Code:2
GeneProduct:assimilatory nitrite reductase small subunit
Cell Localization:()
Synonyms:nasE
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(8) Central intermediary metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2146
Secondary Functional Category(ies):energy metabolism
EC Number:1.6.6.4
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAP30019.1| (AY163855) assimilatory nitrite reductase small subunit
           [Pseudomonas chlororaphis]
          Length = 105

 Score =  184 bits (467), Expect = 8e-47
 Identities = 83/101 (82%), Positives = 91/101 (90%)

>gb|AAM73545.1|AF283498_5 (AF283498) assimilatory nitrite reductase small subunit
           [Azospirillum brasilense]
          Length = 118

 Score =  127 bits (319), Expect = 1e-29
 Identities = 58/101 (57%), Positives = 77/101 (76%)

>dbj|BAB49888.1| (AP003000) nitrite reductase small subunit [Mesorhizobium loti]
          Length = 109

 Score =  126 bits (317), Expect = 2e-29
 Identities = 55/105 (52%), Positives = 75/105 (71%)








 
Structural Features:
COG2146, {NirD}, Ferredoxin subunits of nitrite reductase and 
ring-hydroxylating dioxygenases 
[Inorganic ion transport and metabolism]
CD-Length = 106 residues,  98.1% aligned
Score =  109 bits (273), Expect = 8e-26
Identities = 46/104 (44%), Positives = 64/104 (61%), Gaps = 2/104 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:9978




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27119




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37107




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4989_cdd.html


    		




 
URL:

















    ReferenceID:37814




  
Author/Investigator(s):
        Peakman T, Crouzet J, Mayaux JF, Busby S, Mohan S, Harborne N, Wootton J, Nicolson R, Cole J.





  
Title:
        Nucleotide sequence, organisation and structural analysis of the products of genes in the nirB-cysG region of the Escherichia coli K-12 chromosome.




  
PubMed:
        2200672


MedLine:
        




    
Source:
Eur J Biochem. 1990 Jul 31;191(2):315-23.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2200672

















    ReferenceID:37819




  
Author/Investigator(s):
        Ogawa K, Akagawa E, Yamane K, Sun ZW, LaCelle M, Zuber P, Nakano MM.





  
Title:
        The nasB operon and nasA gene are required for nitrate/nitrite assimilation in Bacillus subtilis.




  
PubMed:
        7868621


MedLine:
        




    
Source:
J Bacteriol. 1995 Mar;177(5):1409-13.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7868621









           
Homologs By Global Alignment 

           

       



     
Gene ID:4989
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7394
                           PA1780_tr
                           translation of PA1780
                           108
                           98.14
                           99.99
                           0
                           577.0
     

     
     
191297
                           gb|AAG05169.1|AE004603_9
                           (AE004603) assimilatory nitrite reductase small subunit [Pseudomonas aeruginosa PAO1]
                           108
                           98.14
                           99.99
                           0
                           577.0
     

     
     
191298
                           gb|AAP30019.1|
                           (AY163855) assimilatory nitrite reductase small subunit [Pseudomonas chlororaphis]
                           108
                           76.85
                           85.18
                           3
                           466.0
     

     
     
191301
                           gb|AAM41297.1|
                           (AE012305) Nitrite assimilation small subunit [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           121
                           54.54
                           66.11
                           15
                           308.0
     

     
     
191300
                           dbj|BAB49888.1|
                           (AP003000) nitrite reductase small subunit [Mesorhizobium loti]
                           109
                           51.37
                           69.72
                           1
                           316.0
     

     






      

          
GC ORFID: 47991How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1780Glimmer Score: 

          
Start: 1245359Stop: 1245033

          
Length: 327


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1780 translation of PA1780Homolog Bit Score 226.0

          
Other Homologs:  t_PA1780 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACTGGCTGGATATCTGCGCCCTCGATGAAATCAACCCGCTGGGCTCGCGCGTGGTCGCCGGCCCGAAA 
GGCGACATCGCCATCTTCCGCGCCTCCGACGACCAGGTCTTCGCCCTCGATGACCGCTGCCCGCACAAGGGC 
GGCCCGCTGTCCCAGGGCCTGATCTACGGCAAGCGAGTGGCCTGTCCGTTGCACAACTGGCAGATCGAACTG 
GAGAGCGGCGAAGCCGTGGCCCCGGACCAGGGCTGCGCCCATCGCCACCCGGTGCGGGTGGAGAACGGACGG 
GTGCTGCTCGGCCTGGACAGCGTGGCGCTGTGCGCCTGA