ViewGene
Locus Name:
GeneID:
Location:

GeneID:5434
TrivialName: PA14_70640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70640
PAO1 Ortholog Locus:PA5351
Sequence Length:168
Protein Length:55
Start: 6292267
Stop: 6292100
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08736.1|AE004947_6 (AE004947) Rubredoxin 1 [Pseudomonas aeruginosa PAO1]
Identities = 55/55 (100%), Positives = 55/55 (100%)
Sequence:
ATGAAGAAGTGGCAATGCGTGGTGTGTGGACTGATCTATGACGAGGCCAAAGGCTGGCCGGAAGAAGGCATC
GAGGCGGGAACGCGCTGGGAAGACGTGCCTGAAGACTGGCTGTGCCCCGACTGCGGCGTCGGCAAGCTGGAC
TTCGAGATGATCGAAATCGGCTGA
Translation:
MKKWQCVVCGLIYDEAKGWPEEGIEAGTRWEDVPEDWLCPDCGVGKLDFEMIEIG*
AnnotationID:5439GeneID:5434
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 06:06:42
Gene Name:rubA1
Confidence Code:1
GeneProduct:Rubredoxin 1
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(5) Carbon compound catabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1773,cd00730,pfam00301
Secondary Functional Category(ies):energy metabolism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70880.1|AE016732_5 (AE016794) rubredoxin [Pseudomonas putida KT2440]
          Length = 55

 Score =  116 bits (290), Expect = 4e-26
 Identities = 47/55 (85%), Positives = 51/55 (92%)

>gb|AAO58893.1| (AE016875) rubredoxin [Pseudomonas syringae pv. tomato str.
          DC3000]
          Length = 55

 Score =  112 bits (281), Expect = 4e-25
 Identities = 45/54 (83%), Positives = 51/54 (94%)







 
Structural Features:
COG1773, Rubredoxin [Energy production and conversion]
CD-Length = 55 residues, 100.0% aligned
Score = 74.1 bits (182), Expect = 3e-15
Identities = 33/55 (60%), Positives = 42/55 (76%)

pfam00301, Rubredoxin, Rubredoxin.
CD-Length = 49 residues, 100.0% aligned
Score = 66.9 bits (163), Expect = 5e-13
Identities = 28/49 (57%), Positives = 36/49 (73%)

cd00730, rubredoxin, Rubredoxin; nonheme iron binding domains 
containing a [Fe(SCys)4] center.
CD-Length = 50 residues, 100.0% aligned
Score = 68.4 bits (167), Expect = 2e-13
Identities = 29/50 (58%), Positives = 39/50 (78%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10866




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28014




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34746




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5434_cdd.html


    		




 
URL:

















    ReferenceID:35687




  
Author/Investigator(s):
        Whyte LG, Smits TH, Labbe D, Witholt B, Greer CW, van Beilen JB.





  
Title:
        Gene cloning and characterization of multiple alkane hydroxylase systems in Rhodococcus strains Q15 and NRRL B-16531.




  
PubMed:
        12450813


MedLine:
        




    
Source:
Appl Environ Microbiol. 2002 Dec;68(12):5933-42.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=12450813









           
Homologs By Global Alignment 

           

       



     
Gene ID:5434
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7827
                           PA5351_tr
                           translation of PA5351
                           55
                           99.99
                           99.99
                           0
                           323.0
     

     
     
196524
                           gb|AAG08736.1|AE004947_6
                           (AE004947) Rubredoxin 1 [Pseudomonas aeruginosa PAO1]
                           55
                           99.99
                           99.99
                           0
                           323.0
     

     
     
196525
                           gb|AAN70880.1|AE016732_5
                           (AE016794) rubredoxin [Pseudomonas putida KT2440]
                           55
                           85.45
                           92.72
                           0
                           290.0
     

     
     
7828
                           PA5350_tr
                           translation of PA5350
                           55
                           81.81
                           89.09
                           0
                           272.0
     

     
     
196526
                           gb|AAO58893.1|
                           (AE016875) rubredoxin [Pseudomonas syringae pv. tomato str. DC3000]
                           55
                           81.81
                           92.72
                           0
                           281.0
     

     






      

          
GC ORFID: 48436How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5351Glimmer Score: 

          
Start: 5555956Stop: 5555789

          
Length: 168


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5351 translation of PA5351Homolog Bit Score 129.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene4208 (ORF: BLASTX 112.0), t_PA5350 (ORF: BLASTX 109.0), t_PA5351 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAGAAGTGGCAATGCGTGGTGTGTGGACTGATCTATGACGAGGCCAAAGGCTGGCCGGAAGAAGGCATC 
GAGGCGGGAACGCGCTGGGAAGACGTGCCTGAAGACTGGCTGTGCCCCGACTGCGGCGTCGGCAAGCTGGAC 
TTCGAGATGATCGAAATCGGCTGA