ViewGene
Locus Name:
GeneID:
Location:

GeneID:1482
TrivialName: PA14_06720
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_06720
PAO1 Ortholog Locus:PA0516
Sequence Length:1179
Protein Length:392
Start: 587653
Stop: 586475
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03905.1|AE004488_9 (AE004488) heme d1 biosynthesis protein NirF [Pseudomonas aeruginosa PAO1]
Identities = 390/392 (99%), Positives = 390/392 (99%)
Sequence:
ATGAACCTGCGTCCCCTCGCGCCGCTTTTCCTCGCCCTGCTCGCCGGCTGTAGCCAGCAGCCGCCCTTGCGC
GGCAGCGGCGACCTCGGCGTGCTGATCGAACGCGCCGACGGCAGCGTGCAGATCCTCGACGGCACGGCGAAG
ACCTCGCTGGCGCGGGTCGAAGGCCTCGGCGACCTGTCCCACGCCTCCCTGGTGTTCTCCCGCGACCAGCGC
TACGCCTACGTATTCGGTCGCGACGGCGGCCTGACCAAGCTCGACCTGCTGGCCCAGCGCATCGACAAGCGC
CTGATCCAGGGCGGCAACAGCATCGGCGGAGCGATCAGCCAGGACGGTCGGCTGGTCGCGGTATCCAACTAC
GAGCCGGGCGGGGTCAAGGTGTTCGACAGCCGCACCCTGGAGCTGGTCGCCGAGATTCCCGCCACCCGCCTC
CCCGGCCAGGACAGGAACTCCCGGGTGGTCGGCCTGGTCGACGCGCCCGGGCAGCGCTTCGTGTTCAGCCTG
TTCGACAGCGGCGAGATCTGGATCGCCGACTTCAGCCAGGGCGACACGCCGCACCTGACCCGCTTCCGCGAT
ATCGGCAAGCAACCCTACGACGCCCTCATCAGTCCCGACGGGCGCTACTACATGGCCGGGCTGTTCGGCGAG
GACGGCATGGCCCAGCTCGACCTCTGGCACCCGGAGCGCGGCGTCAGGCGCGTACTCGGCGACTACGGCCGC
GGCCAACGCAAGCTGCCGGTGTACAAGATGCCGCACCTGGAGGGCTGGACCATCGCCAGCGACCAGGCCTTC
GTCCCGGCGGTCGGCCATCACCAGGTGCTGGTGCTCGACGCGCGCGACTGGAAGCAGACCGACGCCATCGAC
GTCGCCGGCCAGCCGGTGTTCGTCATGACTCGACCGGACGACCGGCAGATCTGGGTCAACTTCGCCTACCCG
GACAACGACAAGGTGCAGGTCATCGACAGCGAGACCCACGAAGTGATCGAAACCCTGCGCCCTGGCCCCGGC
GTACTGCACATGGAATTCAGCGGGCGCGGCGACCAGGTCTGGATCTCGGTGCGCGACGCCGACCAGTTGCAG
GTCTGGGACCCGTACCGCCTGAAGCGCATCGGCAGCCTTCCGGCCCGCAGCCCGAGCGGCATCTTCTTCAGC
CACCGCGCCCAGCACATCGGACTCTAG
Translation:
MNLRPLAPLFLALLAGCSQQPPLRGSGDLGVLIERADGSVQILDGTAKTSLARVEGLGDLSHASLVFSRDQR
YAYVFGRDGGLTKLDLLAQRIDKRLIQGGNSIGGAISQDGRLVAVSNYEPGGVKVFDSRTLELVAEIPATRL
PGQDRNSRVVGLVDAPGQRFVFSLFDSGEIWIADFSQGDTPHLTRFRDIGKQPYDALISPDGRYYMAGLFGE
DGMAQLDLWHPERGVRRVLGDYGRGQRKLPVYKMPHLEGWTIASDQAFVPAVGHHQVLVLDARDWKQTDAID
VAGQPVFVMTRPDDRQIWVNFAYPDNDKVQVIDSETHEVIETLRPGPGVLHMEFSGRGDQVWISVRDADQLQ
VWDPYRLKRIGSLPARSPSGIFFSHRAQHIGL*
AnnotationID:1491GeneID:1482
AnnotatorUID: diggins
Modification Date/Time: 2005-03-28 12:12:54
Gene Name:nirF
Confidence Code:1
GeneProduct:heme d1 biosynthesis protein NirF
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam02239
Secondary Functional Category(ies):biosynthesis of cofactors, prosthetic groups and carriers
EC Number:1.9.3.2
Status:ACTIVE
Pathway:






 
Homology:
>emb|CAA90578.1| (Z50198) NirF protein [Pseudomonas stutzeri]
          Length = 391

 Score =  589 bits (1519), Expect = e-168
 Identities = 272/382 (71%), Positives = 332/382 (86%), Gaps = 1/382 (0%)






 
Structural Features:
pfam02239, Cytochrom_D1, Cytochrome D1 heme domain.
CD-Length = 369 residues, 100.0% aligned
Score =  474 bits (1221), Expect = 7e-135
Identities = 168/374 (44%), Positives = 212/374 (56%), Gaps = 14/374 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2967




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20112




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33824




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1482_cdd.html


    		




 
URL:

















    ReferenceID:35303




  
Author/Investigator(s):
        Kawasaki S, Arai H, Igarashi Y, Kodama T.





  
Title:
        Sequencing and characterization of the downstream region of the genes encoding nitrite reductase and cytochrome c-551 (nirSM) from Pseudomonas aeruginosa: identification of the gene necessary for biosynthesis of heme d1.




  
PubMed:
        8566817


MedLine:
        




    
Source:
Gene. 1995 Dec 29;167(1-2):87-91.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8566817









           
Homologs By Global Alignment 

           

       



     
Gene ID:1482
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2660
                           PA0516_tr
                           translation of PA0516
                           392
                           99.48
                           99.48
                           0
                           2046.0
     

     
     
84097
                           gb|AAG03905.1|AE004488_9
                           (AE004488) heme d1 biosynthesis protein NirF [Pseudomonas aeruginosa PAO1]
                           392
                           99.48
                           99.48
                           0
                           2046.0
     

     
     
84098
                           dbj|BAA09066.1|
                           (D50473) unknown [Pseudomonas aeruginosa]
                           392
                           99.48
                           99.48
                           0
                           2046.0
     

     
     
84099
                           emb|CAA90578.1|
                           (Z50198) NirF protein [Pseudomonas stutzeri]
                           395
                           70.12
                           85.31
                           7
                           1522.0
     

     
     
84100
                           gb|AAA93121.1|
                           (U05002) unknown [Paracoccus denitrificans]
                           394
                           54.56
                           71.82
                           12
                           1121.0
     

     






      

          
GC ORFID: 44484How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0516Glimmer Score: 

          
Start: 6388995Stop: 6387817

          
Length: 1179


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA0516 translation of PA0516Homolog Bit Score 792.0

          
Other Homologs:  t_PA0516 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACCTGCGTCCCCTCGCGCCGCTTTTCCTCGCCCTGCTCGCCGGCTGTAGCCAGCAGCCGCCCTTGCGC 
GGCAGCGGCGACCTCGGCGTGCTGATCGAACGCGCCGACGGCAGCGTGCAGATCCTCGACGGCACGGCGAAG 
ACCTCGCTGGCGCGGGTCGAAGGCCTCGGCGACCTGTCCCACGCCTCCCTGGTGTTCTCCCGCGACCAGCGC 
TACGCCTACGTATTCGGTCGCGACGGCGGCCTGACCAAGCTCGACCTGCTGGCCCAGCGCATCGACAAGCGC 
CTGATCCAGGGCGGCAACAGCATCGGCGGAGCGATCAGCCAGGACGGTCGGCTGGTCGCGGTATCCAACTAC 
GAGCCGGGCGGGGTCAAGGTGTTCGACAGCCGCACCCTGGAGCTGGTCGCCGAGATTCCCGCCACCCGCCTC 
CCCGGCCAGGACAGGAACTCCCGGGTGGTCGGCCTGGTCGACGCGCCCGGGCAGCGCTTCGTGTTCAGCCTG 
TTCGACAGCGGCGAGATCTGGATCGCCGACTTCAGCCAGGGCGACACGCCGCACCTGACCCGCTTCCGCGAT 
ATCGGCAAGCAACCCTACGACGCCCTCATCAGTCCCGACGGGCGCTACTACATGGCCGGGCTGTTCGGCGAG 
GACGGCATGGCCCAGCTCGACCTCTGGCACCCGGAGCGCGGCGTCAGGCGCGTACTCGGCGACTACGGCCGC 
GGCCAACGCAAGCTGCCGGTGTACAAGATGCCGCACCTGGAGGGCTGGACCATCGCCAGCGACCAGGCCTTC 
GTCCCGGCGGTCGGCCATCACCAGGTGCTGGTGCTCGACGCGCGCGACTGGAAGCAGACCGACGCCATCGAC 
GTCGCCGGCCAGCCGGTGTTCGTCATGACTCGACCGGACGACCGGCAGATCTGGGTCAACTTCGCCTACCCG 
GACAACGACAAGGTGCAGGTCATCGACAGCGAGACCCACGAAGTGATCGAAACCCTGCGCCCTGGCCCCGGC 
GTACTGCACATGGAATTCAGCGGGCGCGGCGACCAGGTCTGGATCTCGGTGCGCGACGCCGACCAGTTGCAG 
GTCTGGGACCCGTACCGCCTGAAGCGCATCGGCAGCCTTCCGGCCCGCAGCCCGAGCGGCATCTTCTTCAGC 
CACCGCGCCCAGCACATCGGACTCTAG