ViewGene
Locus Name:
GeneID:
Location:

GeneID:808
TrivialName: PA14_44370
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_44370
PAO1 Ortholog Locus:PA1554
Sequence Length:1428
Protein Length:475
Start: 3950769
Stop: 3952196
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04943.1|AE004583_8 (AE004583) probable cytochrome oxidase subunit (cbb3-type) [Pseudomonas aeruginosa PAO1]
Identities = 475/475 (100%), Positives = 475/475 (100%)
Sequence:
ATGAGCACAGCAATCAGTCAGACTGCTTATAACTATAAGGTGGTCCGCCAGTTCGCCGTTATGACGGTGGTC
TGGGGGGTCATTGGAATGGGTCTCGGTGTCCTGATCGCCGCCCAACTGGTATGGCCCGAATTGAACTTCGAC
CTGCCGTGGACGAGCTTCGGCCGCCTTCGCCCCCTGCACACCAACGCGGTGATCTTCGCCTTCGGTGGGTGC
GCCCTCTTCGCCACCTCGTACTACGTGGTGCAACGTACCTCGCAAGCCCGACTGATTTCAGACACGCTGGCG
GCCTTCACCTTCTGGGGTTGGCAGGCCGTGATCGTGGGCGCCGTGCTGACCCTGCCGCAGGGTTTCACCACC
TCCAAGGAATACGCCGAACTGGAATGGCCGCTGGCCATCCTCCTGGCGATCGTCTGGATCACCTACGCGATC
GTGTTCTTCGGCACCATCGTCAAGCGCAAGGTCAAGCACATCTATGTGGGCAACTGGTTCTACGGTGCCTTC
ATCCTGGTGACGGCGATGCTGCATATCGTCAACCACATGTCGCTGCCGGTGAGCTGGTTCAAGTCCTACTCC
GCCTACTCCGGCGCCACCGATGCGATGGTCCAGTGGTGGTACGGCCACAACGCCGTGGGCTTCTTCCTGACC
ACCGGCTTCCTCGGCATGATGTACTACTTCGTGCCCAAGCAGGCCGAGCGTCCGGTCTATTCCTATCGCCTG
TCCATCGTCCACTTCTGGGCGCTGATCTCCCTGTACATCTGGGCCGGCCCGCACCACCTGCACTACACCGCG
CTGCCGGACTGGGCGCAGTCGCTGGGCATGGTGATGTCGCTGATCCTCCTGGCACCGAGCTGGGGCGGCATG
ATCAACGGCATGATGACCCTCTCCGGCGCCTGGCATAAGCTGCGCACCGACCCGATCCTGCGCTTCCTGGTG
GTATCCCTGGCCTTCTACGGCATGTCCACCTTCGAAGGCCCGATGATGGCGATCAAGACCGTCAACGCCCTC
TCCCACTACACCGACTGGACCATCGGCCACGTGCACGCCGGCGCCCTCGGCTGGGTGGCGATGATCTCCATC
GGCTCGCTCTACCACCTGATCCCGAAAGTCTTCGGTCGCCCGCAGATGCACAGCATCGGCCTGATCAACGCG
CACTTCTGGCTGGCCACCATCGGCACCGTGCTGTACATCGCCTCGATGTGGGTCAACGGCATCACCCAGGGC
CTGATGTGGCGCGCGGTCAACGAGGACGGCACCCTGACCTACTCCTTCGTTGAAGCACTGGTCGCAAGCCAC
CCGGGCTTCATCGTGCGCATGATCGGCGGTGGTTTCTTCCTCACCGGCATGCTGCTGATGGCCTACAACACC
TGGCGCACCGTGCGTGCTGCCAAGCCGGCCGAATACGAAGCCGCCGCGCAGATCGCCTGA
Translation:
MSTAISQTAYNYKVVRQFAVMTVVWGVIGMGLGVLIAAQLVWPELNFDLPWTSFGRLRPLHTNAVIFAFGGC
ALFATSYYVVQRTSQARLISDTLAAFTFWGWQAVIVGAVLTLPQGFTTSKEYAELEWPLAILLAIVWITYAI
VFFGTIVKRKVKHIYVGNWFYGAFILVTAMLHIVNHMSLPVSWFKSYSAYSGATDAMVQWWYGHNAVGFFLT
TGFLGMMYYFVPKQAERPVYSYRLSIVHFWALISLYIWAGPHHLHYTALPDWAQSLGMVMSLILLAPSWGGM
INGMMTLSGAWHKLRTDPILRFLVVSLAFYGMSTFEGPMMAIKTVNALSHYTDWTIGHVHAGALGWVAMISI
GSLYHLIPKVFGRPQMHSIGLINAHFWLATIGTVLYIASMWVNGITQGLMWRAVNEDGTLTYSFVEALVASH
PGFIVRMIGGGFFLTGMLLMAYNTWRTVRAAKPAEYEAAAQIA*
AnnotationID:817GeneID:808
AnnotatorUID: danlee
Modification Date/Time: 2006-02-03 14:02:47
Gene Name:
Confidence Code:3
GeneProduct:cytochrome oxidase subunit (cbb3-type)
Cell Localization:()
Synonyms:PA1554, ccoN, fixN, cytN
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:cytochrome c oxidase, cbb3-type, subunit I
Functional Category Confidence Code:5
COGs:COG3278,pfam00115
Secondary Functional Category(ies):posttranslational modification, protein turnover, chaperones
EC Number:1.9.3.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69835.1|AE016622_12 (AE016790) cytochrome c oxidase, cbb3-type, subunit I [Pseudomonas
           putida KT2440]
          Length = 480

 Score =  898 bits (2321), Expect = 0.0
 Identities = 421/474 (88%), Positives = 454/474 (95%)

>gb|AAO55522.1| (AE016862) cytochrome c oxidase, cbb3-type, subunit I [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 480

 Score =  863 bits (2231), Expect = 0.0
 Identities = 404/475 (85%), Positives = 441/475 (92%)

>dbj|BAC59807.1| (AP005078) cytochrome c oxidase, subunit CcoN [Vibrio
           parahaemolyticus]
          Length = 477

 Score =  772 bits (1993), Expect = 0.0
 Identities = 350/455 (76%), Positives = 404/455 (88%)








 
Structural Features:
COG3278, CcoN, Cbb3-type cytochrome oxidase, subunit 1 
[Posttranslational modification, protein turnover, chaperones]
CD-Length = 482 residues,  99.2% aligned
Score =  720 bits (1859), Expect = 0.0
Identities = 364/478 (76%), Positives = 411/478 (85%), Gaps = 5/478 (1%)

pfam00115, COX1, Cytochrome C and Quinol oxidase polypeptide I.
CD-Length = 458 residues,  88.9% aligned
Score =  240 bits (615), Expect = 2e-64
Identities = 93/433 (21%), Positives = 154/433 (35%), Gaps = 35/433 (8%)









   
Genomic Context:






   
Comment:


















    ReferenceID:1619




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18761




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37311




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:808_cdd.html


    		




 
URL:

















    ReferenceID:37916




  
Author/Investigator(s):
        Vollack KU, Xie J, Hartig E, Romling U, Zumft WG.





  
Title:
        Localization of denitrification genes on the chromosomal map of Pseudomonas aeruginosa.




  
PubMed:
        9493381


MedLine:
        




    
Source:
Microbiology. 1998 Feb;144 ( Pt 2):441-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9493381

















    ReferenceID:37919




  
Author/Investigator(s):
        Thony-Meyer L, Beck C, Preisig O, Hennecke H.





  
Title:
        The ccoNOQP gene cluster codes for a cb-type cytochrome oxidase that functions in aerobic respiration of Rhodobacter capsulatus.




  
PubMed:
        7891558


MedLine:
        




    
Source:
Mol Microbiol. 1994 Nov;14(4):705-16.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7891558

















    ReferenceID:37926




  
Author/Investigator(s):
        Preisig O, Anthamatten D, Hennecke H.





  
Title:
        Genes for a microaerobically induced oxidase complex in Bradyrhizobium japonicum are essential for a nitrogen-fixing endosymbiosis.




  
PubMed:
        8386371


MedLine:
        




    
Source:
Proc Natl Acad Sci U S A. 1993 Apr 15;90(8):3309-13.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8386371









           
Homologs By Global Alignment 

           

       



     
Gene ID:808
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1447
                           PA1554_tr
                           translation of PA1554
                           475
                           99.99
                           99.99
                           0
                           2531.0
     

     
     
52962
                           gb|AAG04943.1|AE004583_8
                           (AE004583) probable cytochrome oxidase subunit (cbb3-type) [Pseudomonas aeruginosa PAO1]
                           475
                           99.99
                           99.99
                           0
                           2531.0
     

     
     
52963
                           gb|AAN69835.1|AE016622_12
                           (AE016790) cytochrome c oxidase, cbb3-type, subunit I [Pseudomonas putida KT2440]
                           480
                           87.70
                           94.58
                           5
                           2321.0
     

     
     
1448
                           PA4133_tr
                           translation of PA4133
                           475
                           87.36
                           94.10
                           0
                           2266.0
     

     
     
52964
                           gb|AAG07520.1|AE004830_1
                           (AE004830) cytochrome c oxidase subunit (cbb3-type) [Pseudomonas aeruginosa PAO1]
                           475
                           87.36
                           94.10
                           0
                           2266.0
     

     






      

          
GC ORFID: 43810How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1554Glimmer Score: 

          
Start: 1003140Stop: 1001713

          
Length: 1428


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1554 translation of PA1554Homolog Bit Score 979.0

          
Other Homologs:  t_PA4133 (ORF: BLASTX 877.0), t_PA1557 (ORF: BLASTX 875.0), psyr_15may02_Scaffold8_revised_gene7525 (ORF: BLASTX 846.0), t_PA1856 (ORF: BLASTX 824.0), t_PA1554 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCACAGCAATCAGTCAGACTGCTTATAACTATAAGGTGGTCCGCCAGTTCGCCGTTATGACGGTGGTC 
TGGGGGGTCATTGGAATGGGTCTCGGTGTCCTGATCGCCGCCCAACTGGTATGGCCCGAATTGAACTTCGAC 
CTGCCGTGGACGAGCTTCGGCCGCCTTCGCCCCCTGCACACCAACGCGGTGATCTTCGCCTTCGGTGGGTGC 
GCCCTCTTCGCCACCTCGTACTACGTGGTGCAACGTACCTCGCAAGCCCGACTGATTTCAGACACGCTGGCG 
GCCTTCACCTTCTGGGGTTGGCAGGCCGTGATCGTGGGCGCCGTGCTGACCCTGCCGCAGGGTTTCACCACC 
TCCAAGGAATACGCCGAACTGGAATGGCCGCTGGCCATCCTCCTGGCGATCGTCTGGATCACCTACGCGATC 
GTGTTCTTCGGCACCATCGTCAAGCGCAAGGTCAAGCACATCTATGTGGGCAACTGGTTCTACGGTGCCTTC 
ATCCTGGTGACGGCGATGCTGCATATCGTCAACCACATGTCGCTGCCGGTGAGCTGGTTCAAGTCCTACTCC 
GCCTACTCCGGCGCCACCGATGCGATGGTCCAGTGGTGGTACGGCCACAACGCCGTGGGCTTCTTCCTGACC 
ACCGGCTTCCTCGGCATGATGTACTACTTCGTGCCCAAGCAGGCCGAGCGTCCGGTCTATTCCTATCGCCTG 
TCCATCGTCCACTTCTGGGCGCTGATCTCCCTGTACATCTGGGCCGGCCCGCACCACCTGCACTACACCGCG 
CTGCCGGACTGGGCGCAGTCGCTGGGCATGGTGATGTCGCTGATCCTCCTGGCACCGAGCTGGGGCGGCATG 
ATCAACGGCATGATGACCCTCTCCGGCGCCTGGCATAAGCTGCGCACCGACCCGATCCTGCGCTTCCTGGTG 
GTATCCCTGGCCTTCTACGGCATGTCCACCTTCGAAGGCCCGATGATGGCGATCAAGACCGTCAACGCCCTC 
TCCCACTACACCGACTGGACCATCGGCCACGTGCACGCCGGCGCCCTCGGCTGGGTGGCGATGATCTCCATC 
GGCTCGCTCTACCACCTGATCCCGAAAGTCTTCGGTCGCCCGCAGATGCACAGCATCGGCCTGATCAACGCG 
CACTTCTGGCTGGCCACCATCGGCACCGTGCTGTACATCGCCTCGATGTGGGTCAACGGCATCACCCAGGGC 
CTGATGTGGCGCGCGGTCAACGAGGACGGCACCCTGACCTACTCCTTCGTTGAAGCACTGGTCGCAAGCCAC 
CCGGGCTTCATCGTGCGCATGATCGGCGGTGGTTTCTTCCTCACCGGCATGCTGCTGATGGCCTACAACACC 
TGGCGCACCGTGCGTGCTGCCAAGCCGGCCGAATACGAAGCCGCCGCGCAGATCGCCTGA