ViewGene
Locus Name:
GeneID:
Location:

GeneID:3652
TrivialName: PA14_58000
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_58000
PAO1 Ortholog Locus:PA4468
Sequence Length:612
Protein Length:203
Start: 5161641
Stop: 5161030
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07856.1|AE004860_12 (AE004860) superoxide dismutase [Pseudomonas aeruginosa PAO1]
Identities = 203/203 (100%), Positives = 203/203 (100%)
Sequence:
ATGCCCCACGCCTTGCCGCCCTTGCCCTACGCCTACGATGCCCTGGAACCGCACATCGATGCGCTGACCATG
GAGATCCACCACAGCAAGCACCACCAGACCTACGTGAACAACCTGAACGCCGCGCTGGAAGGCACGCCCTAT
GCCGAGCAGCCGGTGGAAAGCCTGCTGCGGCAACTGGCTGGTCTGCCGGAGAAGCTGCGCACCCCGGTTGTC
AACAATGGCGGTGGGCATGCCAACCACTCGCTGTTCTGGACCGTGATGTCGCCCCAGGGCGGTGGCCGTCCC
GATGGCGACCTGGGGCGGGCCATCGATGAGCAGCTCGGGGGCTTCGAGGCGTTCAAGGATGCGTTCACCAAG
GCTGCGCTGACCCGCTTCGGCAGCGGCTGGGCCTGGCTCAGCGTGACTCCCCAGGGCAGCTTGCTGGTGGAG
AGCAGCGGTAACCAGGACAGCCCGCTGATGAACGGCAATACGCCGATCCTCGGCCTGGACGTATGGGAGCAC
GCCTATTACCTGAAGTACCAGAACCGCCGCCCGGAATACATCGGCGCTTTCTACAACGTGATCGACTGGCGG
GAGGTCGCGCGTCGCTATGCGCAAGCCCTGGCCTAA
Translation:
MPHALPPLPYAYDALEPHIDALTMEIHHSKHHQTYVNNLNAALEGTPYAEQPVESLLRQLAGLPEKLRTPVV
NNGGGHANHSLFWTVMSPQGGGRPDGDLGRAIDEQLGGFEAFKDAFTKAALTRFGSGWAWLSVTPQGSLLVE
SSGNQDSPLMNGNTPILGLDVWEHAYYLKYQNRRPEYIGAFYNVIDWREVARRYAQALA*
AnnotationID:3660GeneID:3652
AnnotatorUID: diggins
Modification Date/Time: 2005-05-03 08:08:27
Gene Name:sodM
Confidence Code:1
GeneProduct:superoxide dismutase
Cell Localization:()
Synonyms:sodA
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(1) Adaptation, protection
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0605,KOG0876,pfam02777
Secondary Functional Category(ies):
EC Number:1.15.1.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAB06333.1| (AF102270) manganese superoxide dismutase [Pseudomonas putida]
          Length = 203

 Score =  345 bits (885), Expect = 1e-94
 Identities = 163/202 (80%), Positives = 175/202 (86%)

>gb|AAM41557.1| (AE012335) superoxide dismutase [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
          Length = 203

 Score =  330 bits (847), Expect = 2e-90
 Identities = 151/203 (74%), Positives = 174/203 (85%)








 
Structural Features:
COG0605, SodA, Superoxide dismutase [Inorganic ion transport and metabolism]
CD-Length = 204 residues,  99.0% aligned
Score =  289 bits (741), Expect = 3e-79
Identities = 120/206 (58%), Positives = 147/206 (71%), Gaps = 7/206 (3%)

KOG0876, Manganese superoxide dismutase 
[Inorganic ion transport and metabolism]
CD-Length = 234 residues,  86.3% aligned
Score =  201 bits (512), Expect = 1e-52
Identities = 91/204 (44%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

pfam02777, Sod_Fe_C, Iron/manganese superoxide dismutases
CD-Length = 106 residues, 100.0% aligned
Score =  155 bits (393), Expect = 8e-39
Identities = 63/106 (59%), Positives = 77/106 (72%), Gaps = 1/106 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:7307




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24449




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31508




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3652_cdd.html


    		




 
URL:

















    ReferenceID:32856




  
Author/Investigator(s):
        Karavolos MH, Horsburgh MJ, Ingham E, Foster SJ.





  
Title:
        Role and regulation of the superoxide dismutases of Staphylococcus aureus.




  
PubMed:
        14523108


MedLine:
        




    
Source:
Microbiology. 2003 Oct;149(Pt 10):2749-58.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14523108

















    ReferenceID:32857




  
Author/Investigator(s):
        Krayl M, Benndorf D, Loffhagen N, Babel W.





  
Title:
        Use of proteomics and physiological characteristics to elucidate ecotoxic effects of methyl tert-butyl ether in Pseudomonas putida KT2440.




  
PubMed:
        12923780


MedLine:
        




    
Source:
Proteomics. 2003 Aug;3(8):1544-52.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12923780









           
Homologs By Global Alignment 

           

       



     
Gene ID:3652
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5849
                           PA4468_tr
                           translation of PA4468
                           203
                           99.99
                           99.99
                           0
                           1097.0
     

     
     
162995
                           gb|AAG07856.1|AE004860_12
                           (AE004860) superoxide dismutase [Pseudomonas aeruginosa PAO1]
                           203
                           99.99
                           99.99
                           0
                           1097.0
     

     
     
162996
                           gb|AAB17391.1|
                           (U72494) Mn superoxide dismutase [Pseudomonas aeruginosa]
                           203
                           99.99
                           99.99
                           0
                           1097.0
     

     
     
162998
                           gb|AAB06333.1|
                           (AF102270) manganese superoxide dismutase [Pseudomonas putida]
                           203
                           80.29
                           86.20
                           0
                           884.0
     

     
     
162997
                           gb|AAN66571.1|AE016285_9
                           (AE016777) superoxide dismutase (Mn) [Pseudomonas putida KT2440]
                           210
                           78.09
                           83.80
                           7
                           889.0
     

     






      

          
GC ORFID: 46654How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4468Glimmer Score: 

          
Start: 4425320Stop: 4424709

          
Length: 612


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA4468 translation of PA4468Homolog Bit Score 427.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5516 (ORF: BLASTX 329.0), t_PA4366 (ORF: BLASTX 195.0), psyr_15may02_Scaffold12_revised_gene1976 (ORF: BLASTX 188.0), t_PA4468 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCCCCACGCCTTGCCGCCCTTGCCCTACGCCTACGATGCCCTGGAACCGCACATCGATGCGCTGACCATG 
GAGATCCACCACAGCAAGCACCACCAGACCTACGTGAACAACCTGAACGCCGCGCTGGAAGGCACGCCCTAT 
GCCGAGCAGCCGGTGGAAAGCCTGCTGCGGCAACTGGCTGGTCTGCCGGAGAAGCTGCGCACCCCGGTTGTC 
AACAATGGCGGTGGGCATGCCAACCACTCGCTGTTCTGGACCGTGATGTCGCCCCAGGGCGGTGGCCGTCCC 
GATGGCGACCTGGGGCGGGCCATCGATGAGCAGCTCGGGGGCTTCGAGGCGTTCAAGGATGCGTTCACCAAG 
GCTGCGCTGACCCGCTTCGGCAGCGGCTGGGCCTGGCTCAGCGTGACTCCCCAGGGCAGCTTGCTGGTGGAG 
AGCAGCGGTAACCAGGACAGCCCGCTGATGAACGGCAATACGCCGATCCTCGGCCTGGACGTATGGGAGCAC 
GCCTATTACCTGAAGTACCAGAACCGCCGCCCGGAATACATCGGCGCTTTCTACAACGTGATCGACTGGCGG 
GAGGTCGCGCGTCGCTATGCGCAAGCCCTGGCCTAA