ViewGene
Locus Name:
GeneID:
Location:

GeneID:3758
TrivialName: PA14_56780
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_56780
PAO1 Ortholog Locus:PA4366
Sequence Length:582
Protein Length:193
Start: 5057249
Stop: 5057830
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07754.1|AE004852_7 (AE004852) superoxide dismutase [Pseudomonas aeruginosa PAO1]
Identities = 193/193 (100%), Positives = 193/193 (100%)
Sequence:
ATGGCTTTCGAATTGCCGCCGCTGCCTTACGAAAAGAACGCCCTTGAGcCGCACATTTCCGCAGAAAcCCTG
GAATACCACCACGACAAGCACCACAACACCTACGTGGTGAACCTGAACAACCTGATCCCGGGTACCGAGTTC
GAAGGCAAGAGCCTCGAAGAGATCGTCAAGAGCTCCTCCGGCGGCATCTTCAACAACGCCGCCCAGGTGTGG
AACCACACCTTCTACTGGAACTGCCTGAGCCCGAACGGCGGTGGCCAGCCCACCGGCGCCCTGGCCGACGCC
ATCAACGCCGCCTTCGGCTCCTTCGACAAGTTCAAGGAAGAGTTCACCAAGACTTCCGTCGGCACCTTCGGT
TCCGGCTGGGGCTGGCTGGTGAAGAAGGCCGACGGCTCCCTGGCCCTGGCCAGCACCATCGGTGCCGGCAAC
CCGCTGACCAGCGGCGACACCCCGCTGCTGACCTGCGACGTCTGGGAACACGCCTACTACATCGACTACCGC
AACCTGCGTCCGAAGTACGTCGAGGCGTTCTGGAACCTGGTCAACTGGGACTTCGTAGCGAAGAATTTCGCT
GCCTGA
Translation:
MAFELPPLPYEKNALEPHISAETLEYHHDKHHNTYVVNLNNLIPGTEFEGKSLEEIVKSSSGGIFNNAAQVW
NHTFYWNCLSPNGGGQPTGALADAINAAFGSFDKFKEEFTKTSVGTFGSGWGWLVKKADGSLALASTIGAGN
PLTSGDTPLLTCDVWEHAYYIDYRNLRPKYVEAFWNLVNWDFVAKNFAA*
AnnotationID:3765GeneID:3758
AnnotatorUID: diggins
Modification Date/Time: 2005-05-02 06:06:16
Gene Name:sodB
Confidence Code:1
GeneProduct:iron superoxide dismutase"
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(1) Adaptation, protection
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0605,KOG0876,pfam02777,pfam00081
Secondary Functional Category(ies):
EC Number:1.15.1.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAD24797.1|AF121079_1 (AF121079) iron-superoxide dismutase [Pseudomonas syringae pv.
           syringae]
          Length = 193

 Score =  392 bits (1006), Expect = e-109
 Identities = 179/193 (92%), Positives = 188/193 (97%)

>gb|AAO57813.1| (AE016871) superoxide dismutase, Fe [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 193

 Score =  389 bits (1000), Expect = e-108
 Identities = 177/193 (91%), Positives = 188/193 (97%)






 
Structural Features:
COG0605, SodA, Superoxide dismutase 
[Inorganic ion transport and metabolism]
CD-Length = 204 residues,  97.5% aligned
Score =  280 bits (717), Expect = 2e-76
Identities = 120/199 (60%), Positives = 135/199 (67%), Gaps = 6/199 (3%)

KOG0876, Manganese superoxide dismutase 
[Inorganic ion transport and metabolism]
CD-Length = 234 residues,  85.9% aligned         
Score =  203 bits (517), Expect = 3e-53
Identities = 89/201 (44%), Positives = 122/201 (60%), Gaps = 10/201 (4%)

pfam02777, Sod_Fe_C, Iron/manganese superoxide dismutases, 
C-terminal domain.
CD-Length = 106 residues, 100.0% aligned
Score =  167 bits (424), Expect = 2e-42
Identities = 67/106 (63%), Positives = 79/106 (74%), Gaps = 1/106 (0%)







   
Genomic Context:






   
Comment:


















    ReferenceID:7519




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17120




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3758_cdd.html


    		




 
URL:

















    ReferenceID:24661




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32683




  
Author/Investigator(s):
        Polack B, Dacheux D, Delic-Attree I, Toussaint B, Vignais PM.





  
Title:
        The Pseudomonas aeruginosa fumc and soda genes belong to an iron-responsive operon.




  
PubMed:
        8806672


MedLine:
        




    
Source:
Biochem Biophys Res Commun. 1996 Sep 13;226(2):555-60.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8806672

















    ReferenceID:32684




  
Author/Investigator(s):
        Hassett DJ, Schweizer HP, Ohman DE.





  
Title:
        Pseudomonas aeruginosa sodA and sodB mutants defective in manganese- and iron-cofactored superoxide dismutase activity demonstrate the importance of the iron-cofactored form in aerobic metabolism.




  
PubMed:
        7592406


MedLine:
        




    
Source:
J Bacteriol. 1995 Nov;177(22):6330-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7592406

















    ReferenceID:32685




  
Author/Investigator(s):
        Hassett DJ, Woodruff WA, Wozniak DJ, Vasil ML, Cohen MS, Ohman DE.





  
Title:
        Cloning and characterization of the Pseudomonas aeruginosa sodA and sodB genes encoding manganese- and iron-cofactored superoxide dismutase: demonstration of increased manganese superoxide dismutase activity in alginate-producing bacteria.




  
PubMed:
        8244935


MedLine:
        




    
Source:
J Bacteriol. 1993 Dec;175(23):7658-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8244935









           
Homologs By Global Alignment 

           

       



     
Gene ID:3758
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5972
                           PA4366_tr
                           translation of PA4366
                           193
                           99.99
                           99.99
                           0
                           1060.0
     

     
     
166653
                           gb|AAG07754.1|AE004852_7
                           (AE004852) superoxide dismutase [Pseudomonas aeruginosa PAO1]
                           193
                           99.99
                           99.99
                           0
                           1060.0
     

     
     
166654
                           gb|AAD24797.1|AF121079_1
                           (AF121079) iron-superoxide dismutase [Pseudomonas syringae pv. syringae]
                           193
                           92.74
                           97.40
                           0
                           1006.0
     

     
     
166655
                           gb|AAO57813.1|
                           (AE016871) superoxide dismutase, Fe [Pseudomonas syringae pv. tomato str. DC3000]
                           193
                           91.70
                           97.40
                           0
                           1000.0
     

     
     
166659
                           dbj|BAA88212.1|
                           (AB025798) iron superoxide dismutase [Azotobacter vinelandii]
                           193
                           91.70
                           95.33
                           0
                           980.0
     

     






      

          
GC ORFID: 46760How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4366Glimmer Score: 

          
Start: 4320925Stop: 4321506

          
Length: 582


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4366 translation of PA4366Homolog Bit Score 412.0

          
Other Homologs:  psyr_15may02_Scaffold12_revised_gene1976 (ORF: BLASTX 392.0), psyr_15may02_Scaffold4_revised_gene5516 (ORF: BLASTX 201.0), t_PA4468 (ORF: BLASTX 195.0), t_PA4366 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTTTCGAATTGCCGCCGCTGCCTTACGAAAAGAACGCCCTTGAGcCGCACATTTCCGCAGAAAcCCTG 
GAATACCACCACGACAAGCACCACAACACCTACGTGGTGAACCTGAACAACCTGATCCCGGGTACCGAGTTC 
GAAGGCAAGAGCCTCGAAGAGATCGTCAAGAGCTCCTCCGGCGGCATCTTCAACAACGCCGCCCAGGTGTGG 
AACCACACCTTCTACTGGAACTGCCTGAGCCCGAACGGCGGTGGCCAGCCCACCGGCGCCCTGGCCGACGCC 
ATCAACGCCGCCTTCGGCTCCTTCGACAAGTTCAAGGAAGAGTTCACCAAGACTTCCGTCGGCACCTTCGGT 
TCCGGCTGGGGCTGGCTGGTGAAGAAGGCCGACGGCTCCCTGGCCCTGGCCAGCACCATCGGTGCCGGCAAC 
CCGCTGACCAGCGGCGACACCCCGCTGCTGACCTGCGACGTCTGGGAACACGCCTACTACATCGACTACCGC 
AACCTGCGTCCGAAGTACGTCGAGGCGTTCTGGAACCTGGTCAACTGGGACTTCGTAGCGAAGAATTTCGCT 
GCCTGA