ViewGene
Locus Name:
GeneID:
Location:

GeneID:3710
TrivialName: PA14_44380
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_44380
PAO1 Ortholog Locus:PA1553
Sequence Length:612
Protein Length:203
Start: 3952211
Stop: 3952822
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04942.1|AE004583_7 (AE004583) probable cytochrome c oxidase subunit [Pseudomonas aeruginosa PAO1]
Identities = 203/203 (100%), Positives = 203/203 (100%)
Sequence:
ATGAAGAACCACGAAATACTCGAGAAGAACGTCGGCCTGCTGGCCATCTTCATGGTGATCGCCGTCAGCATC
GGCGGCCTGACCCAGATCGTTCCGCTGTTCTTCCAGGACGTGACCAATACCCCGGTCGAAGGCATGAAGCCG
CGTACCGCCCTGGAACTGGAAGGTCGCGACATCTACATCCGCGAAGGCTGCGTCGGCTGCCACTCGCAGATG
GTCCGTCCGTTCCGTGCCGAGACCGAACGCTACGGCCATTACTCGGTCGCCGGTGAAAGCGTCTGGGACCAC
CCGTTCCTGTGGGGTTCCAAGCGTACCGGCCCGGACCTGGCCCGCGTCGGCGGCCGTTACTCCGACGACTGG
CACCGCGCGCACCTGTACAACCCGCGCAACGTGGTGCCCGAGTCGAAGATGCCTGCCTACCCGTGGCTGGTA
GAGAACAAGCTTGATGGCAAGGACACCGCCACCAAGATGGAAGTCCTGCGCAAGCTGGGCGTGCCTTACACC
GACGAGGACATCGCCGGTGCACGTGAAGCCGTGAAGGGCAAGACCGAGATGGACGCCCTGGTGGCGTTCCTT
CAAGGCCTGGGAACCTCTATCAAGAGCAAACGGTGA
Translation:
MKNHEILEKNVGLLAIFMVIAVSIGGLTQIVPLFFQDVTNTPVEGMKPRTALELEGRDIYIREGCVGCHSQM
VRPFRAETERYGHYSVAGESVWDHPFLWGSKRTGPDLARVGGRYSDDWHRAHLYNPRNVVPESKMPAYPWLV
ENKLDGKDTATKMEVLRKLGVPYTDEDIAGAREAVKGKTEMDALVAFLQGLGTSIKSKR*
AnnotationID:3718GeneID:3710
AnnotatorUID: danlee
Modification Date/Time: 2006-02-03 14:02:59
Gene Name:
Confidence Code:3
GeneProduct:putative cytochrome c oxidase, cbb3-type, subunit II
Cell Localization:()
Synonyms:PA1553, ccoO, fixO
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2993,pfam02433
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69836.1|AE016622_13 (AE016790) cytochrome c oxidase, cbb3-type, subunit II [Pseudomonas
           putida KT2440]
          Length = 202

 Score =  388 bits (997), Expect = e-107
 Identities = 183/200 (91%), Positives = 192/200 (96%)

>gb|AAM76065.1|AF521004_1 (AF521004) cytochrome c oxidase monoheme subunit [Pseudomonas
           stutzeri]
          Length = 203

 Score =  374 bits (961), Expect = e-103
 Identities = 174/203 (85%), Positives = 191/203 (94%)

>gb|AAN55397.1|AE015677_8 (AE015677) cytochrome c oxidase, cbb3-type, subunit II [Shewanella
           oneidensis MR-1]
          Length = 208

 Score =  304 bits (779), Expect = 2e-82
 Identities = 144/205 (70%), Positives = 166/205 (80%), Gaps = 7/205 (3%)








 
Structural Features:
COG2993, CcoO, Cbb3-type cytochrome oxidase, cytochrome c subunit 
[Energy production and conversion]
CD-Length = 227 residues,  98.2% aligned
Score =  356 bits (915), Expect = 1e-99
Identities = 149/223 (66%), Positives = 168/223 (75%), Gaps = 21/223 (9%)

pfam02433, FixO, Cytochrome C oxidase, mono-heme subunit/FixO. 
CD-Length = 235 residues,  97.0% aligned
Score =  286 bits (733), Expect = 1e-78
Identities = 123/228 (53%), Positives = 149/228 (65%), Gaps = 28/228 (12%)






   
Genomic Context:






   
Comment:


















    ReferenceID:7423




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24565




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37236




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3710_cdd.html


    		




 
URL:

















    ReferenceID:37918




  
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:37927




  
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:3710
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5919
                           PA1553_tr
                           translation of PA1553
                           203
                           99.99
                           99.99
                           0
                           1076.0
     

     
     
165734
                           gb|AAG04942.1|AE004583_7
                           (AE004583) probable cytochrome c oxidase subunit [Pseudomonas aeruginosa PAO1]
                           203
                           99.99
                           99.99
                           0
                           1076.0
     

     
     
165735
                           gb|AAN69836.1|AE016622_13
                           (AE016790) cytochrome c oxidase, cbb3-type, subunit II [Pseudomonas putida KT2440]
                           203
                           91.13
                           95.56
                           1
                           997.0
     

     
     
5920
                           PA1556_tr
                           translation of PA1556
                           203
                           87.68
                           94.58
                           1
                           961.0
     

     
     
165736
                           gb|AAG04945.1|AE004584_1
                           (AE004584) probable cytochrome c oxidase subunit [Pseudomonas aeruginosa PAO1]
                           203
                           87.68
                           94.58
                           1
                           961.0
     

     






      

          
GC ORFID: 46712How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1553Glimmer Score: 

          
Start: 1001698Stop: 1001087

          
Length: 612


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1553 translation of PA1553Homolog Bit Score 419.0

          
Other Homologs:  t_PA1556 (ORF: BLASTX 374.0), psyr_15may02_Scaffold8_revised_gene7526 (ORF: BLASTX 339.0), t_PA1553 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAGAACCACGAAATACTCGAGAAGAACGTCGGCCTGCTGGCCATCTTCATGGTGATCGCCGTCAGCATC 
GGCGGCCTGACCCAGATCGTTCCGCTGTTCTTCCAGGACGTGACCAATACCCCGGTCGAAGGCATGAAGCCG 
CGTACCGCCCTGGAACTGGAAGGTCGCGACATCTACATCCGCGAAGGCTGCGTCGGCTGCCACTCGCAGATG 
GTCCGTCCGTTCCGTGCCGAGACCGAACGCTACGGCCATTACTCGGTCGCCGGTGAAAGCGTCTGGGACCAC 
CCGTTCCTGTGGGGTTCCAAGCGTACCGGCCCGGACCTGGCCCGCGTCGGCGGCCGTTACTCCGACGACTGG 
CACCGCGCGCACCTGTACAACCCGCGCAACGTGGTGCCCGAGTCGAAGATGCCTGCCTACCCGTGGCTGGTA 
GAGAACAAGCTTGATGGCAAGGACACCGCCACCAAGATGGAAGTCCTGCGCAAGCTGGGCGTGCCTTACACC 
GACGAGGACATCGCCGGTGCACGTGAAGCCGTGAAGGGCAAGACCGAGATGGACGCCCTGGTGGCGTTCCTT 
CAAGGCCTGGGAACCTCTATCAAGAGCAAACGGTGA