ViewGene
Locus Name:
GeneID:
Location:

GeneID:5010
TrivialName: PA14_47160
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_47160
PAO1 Ortholog Locus:PA1320
Sequence Length:336
Protein Length:111
Start: 4202942
Stop: 4202607
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04709.1|AE004561_5 (AE004561) cytochrome o ubiquinol oxidase subunit IV [Pseudomonas aeruginosa PAO1]
Identities = 111/111 (100%), Positives = 111/111 (100%)
Sequence:
ATGAGCAGCGCTGCACACGACAACCACGGCGCCGGCCACGGCAGCCTGGGTTCCTACGCGATCGGCTTCGTG
CTCTCGGTGATCCTCACCGCGATCCCGTTCTACATGGTCATGGACGGCGGCTTCTCGCGCCACGCGACCATC
CTCACCATGGTCGTCCTCGGCCTGGTGCAGGTGGTGGTGCACCTGATCTGCTTCCTGCACATGAACATGTCG
TCGGAAGGGCGCTGGAACGTGATGGCGTTCATCTTCACGGTGATCGTCATCCTGCTGGTAGTCGGTCTCTCG
CTGTGGATCATCTTCAGCGCCGACATGCTGATGATGCCGATGCCCTGA
Translation:
MSSAAHDNHGAGHGSLGSYAIGFVLSVILTAIPFYMVMDGGFSRHATILTMVVLGLVQVVVHLICFLHMNMS
SEGRWNVMAFIFTVIVILLVVGLSLWIIFSADMLMMPMP*
AnnotationID:5015GeneID:5010
AnnotatorUID: diggins
Modification Date/Time: 2005-02-23 06:06:49
Gene Name:cyoD
Confidence Code:2
GeneProduct:cytochrome o ubiquinol oxidase subunit IV
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG3125,pfam03626
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>emb|CAC92402.1| (AJ414155) cytochrome O ubiquinol oxidase subunit CyoD [Yersinia
           pestis CO92]
          Length = 110

 Score =  121 bits (304), Expect = 7e-28
 Identities = 62/108 (57%), Positives = 80/108 (74%)

>emb|CAD16621.1| (AL646072) PROBABLE TRANSMEMBRANE CYTOCHROME O UBIQUINOL OXIDASE
           (SUBUNIT IV) OXIDOREDUCTASE PROTEIN [Ralstonia
           solanacearum]
          Length = 121

 Score =  116 bits (290), Expect = 3e-26
 Identities = 54/103 (52%), Positives = 78/103 (75%)

>gb|AAN66440.1|AE016273_9 (AE016777) cytochrome o ubiquinol oxidase, protein CyoD
           [Pseudomonas putida KT2440]
          Length = 110

 Score =  115 bits (288), Expect = 5e-26
 Identities = 58/105 (55%), Positives = 75/105 (71%), Gaps = 1/105 (0%)








 
Structural Features:
COG3125, CyoD, Heme/copper-type cytochrome/quinol oxidase, subunit 4 
[Energy production and conversion]
CD-Length = 111 residues, 100.0% aligned
Score =  103 bits (257), Expect = 7e-24
Identities = 60/111 (54%), Positives = 83/111 (74%), Gaps = 1/111 (0%)

pfam03626, COX4_pro, Prokaryotic Cytochrome C oxidase subunit IV.
CD-Length = 87 residues, 100.0% aligned
Score = 86.0 bits (213), Expect = 8e-19
Identities = 53/87 (60%), Positives = 67/87 (77%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10020




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27161




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37450




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5010_cdd.html


    		




 
URL:

















    ReferenceID:38014




  
Author/Investigator(s):
        Chepuri V, Lemieux L, Au DC, Gennis RB.





  
Title:
        The sequence of the cyo operon indicates substantial structural similarities between the cytochrome o ubiquinol oxidase of Escherichia coli and the aa3-type family of cytochrome c oxidases.




  
PubMed:
        2162835


MedLine:
        




    
Source:
J Biol Chem. 1990 Jul 5;265(19):11185-92.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2162835









           
Homologs By Global Alignment 

           

       



     
Gene ID:5010
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7416
                           PA1320_tr
                           translation of PA1320
                           111
                           99.99
                           99.99
                           0
                           567.0
     

     
     
191818
                           gb|AAG04709.1|AE004561_5
                           (AE004561) cytochrome o ubiquinol oxidase subunit IV [Pseudomonas aeruginosa PAO1]
                           111
                           99.99
                           99.99
                           0
                           567.0
     

     
     
191819
                           emb|CAE16250.1|
                           (BX571872) cytochrome O ubiquinol oxidase protein cyoD (ubiquinol oxidase chain D) [Photorhabdus luminescens subsp. laumondii TTO1]
                           114
                           57.89
                           71.92
                           7
                           303.0
     

     
     
191820
                           emb|CAC92402.1|
                           (AJ414155) cytochrome O ubiquinol oxidase subunit CyoD [Yersinia pestis CO92]
                           111
                           55.85
                           72.07
                           1
                           299.0
     

     
     
191821
                           gb|AAQ61655.1|
                           (AE016924) cytochrome o ubiquinol oxidase subunit IV [Chromobacterium violaceum ATCC 12472]
                           111
                           53.15
                           74.77
                           5
                           301.0
     

     






      

          
GC ORFID: 48012How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1320Glimmer Score: 

          
Start: 750967Stop: 751302

          
Length: 336


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1320 translation of PA1320Homolog Bit Score 223.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4443 (ORF: BLASTX 111.0), t_PA1320 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCAGCGCTGCACACGACAACCACGGCGCCGGCCACGGCAGCCTGGGTTCCTACGCGATCGGCTTCGTG 
CTCTCGGTGATCCTCACCGCGATCCCGTTCTACATGGTCATGGACGGCGGCTTCTCGCGCCACGCGACCATC 
CTCACCATGGTCGTCCTCGGCCTGGTGCAGGTGGTGGTGCACCTGATCTGCTTCCTGCACATGAACATGTCG 
TCGGAAGGGCGCTGGAACGTGATGGCGTTCATCTTCACGGTGATCGTCATCCTGCTGGTAGTCGGTCTCTCG 
CTGTGGATCATCTTCAGCGCCGACATGCTGATGATGCCGATGCCCTGA