ViewGene
Locus Name:
GeneID:
Location:

GeneID:4876
TrivialName: PA14_44060
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_44060
PAO1 Ortholog Locus:PA1581
Sequence Length:387
Protein Length:128
Start: 3922765
Stop: 3922379
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04970.1|AE004586_8 (AE004586) succinate dehydrogenase (C subunit) [Pseudomonas aeruginosa PAO1]
Identities = 128/128 (100%), Positives = 128/128 (100%)
Sequence:
GTGAAAAAAGCCGTGAATAGCAAACGACCTGTAAACCTAGACCTAAGGACCATCAAACTCCCTGTCACCGCT
TACACGTCCATTCTCCACCGTATCTCTGGCGTCATCCTGTTCCTCGGTATTGCCGTGCTGCTGTTCGCGCTC
GACAAGTCGCTGAGTTCGGAAGAAGGCTTCGAGCAGGTGAAGGCGTGCCTGACCAGTCCCCTGGCCAAGCTG
GTGATCTGGGGCCTGCTGTCTGCGCTGCTGTACCACCTGGTGGCCGGTGTTCGCCACCTGGTCATGGACGCT
GGCGTCGGCGAGACGCTGGAAGGCGGTAAGCGTGGCTCCAAAATCGTCATCGCCATCGCGGTGGTGCTGATC
GTTCTGGCGGGGGTATGGGTATGGTAA
Translation:
MKKAVNSKRPVNLDLRTIKLPVTAYTSILHRISGVILFLGIAVLLFALDKSLSSEEGFEQVKACLTSPLAKL
VIWGLLSALLYHLVAGVRHLVMDAGVGETLEGGKRGSKIVIAIAVVLIVLAGVWVW*
AnnotationID:4881GeneID:4876
AnnotatorUID: diggins
Modification Date/Time: 2005-02-25 13:01:15
Gene Name:sdhC
Confidence Code:2
GeneProduct:succinate dehydrogenase, cytochrome b556 subunit
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam01127,COG2009
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55711.1| (AE016863) succinate dehydrogenase, cytochrome b556 subunit
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 124

 Score =  218 bits (556), Expect = 4e-57
 Identities = 104/124 (83%), Positives = 121/124 (97%)

>gb|AAN69774.1|AE016613_9 (AE016789) succinate dehydrogenase, cytochrome b556 subunit
           [Pseudomonas putida KT2440]
          Length = 128

 Score =  218 bits (555), Expect = 5e-57
 Identities = 108/128 (84%), Positives = 118/128 (92%)

>gb|AAN79271.1|AE016757_175 (AE016757) Succinate dehydrogenase cytochrome b-556 subunit
           [Escherichia coli CFT073]
          Length = 134

 Score =  142 bits (359), Expect = 3e-34
 Identities = 72/129 (55%), Positives = 93/129 (72%), Gaps = 1/129 (0%)






 
Structural Features:
pfam01127, Sdh_cyt, Succinate dehydrogenase cytochrome b subunit.
CD-Length = 117 residues, 100.0% aligned
Score = 98.8 bits (246), Expect = 2e-22
Identities = 48/117 (41%), Positives = 69/117 (58%)

COG2009, SdhC, Succinate dehydrogenase/fumarate reductase, cytochrome b subunit 
[Energy production and conversion]
CD-Length = 132 residues,  95.5% aligned
Score = 88.1 bits (218), Expect = 3e-19
Identities = 58/126 (46%), Positives = 74/126 (58%), Gaps = 5/126 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15196




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26893




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36504




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4876_cdd.html


    		




 
URL:

















    ReferenceID:36570




  
Author/Investigator(s):
        Wood D, Darlison MG, Wilde RJ, Guest JR.





  
Title:
        Nucleotide sequence encoding the flavoprotein and hydrophobic subunits of the succinate dehydrogenase of Escherichia coli.




  
PubMed:
        6383359


MedLine:
        




    
Source:
Biochem J. 1984 Sep 1;222(2):519-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6383359









           
Homologs By Global Alignment 

           

       



     
Gene ID:4876
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7257
                           PA1581_tr
                           translation of PA1581
                           128
                           99.99
                           99.99
                           0
                           629.0
     

     
     
189326
                           gb|AAG04970.1|AE004586_8
                           (AE004586) succinate dehydrogenase (C subunit) [Pseudomonas aeruginosa PAO1]
                           128
                           99.21
                           99.99
                           0
                           626.0
     

     
     
189328
                           gb|AAN69774.1|AE016613_9
                           (AE016789) succinate dehydrogenase, cytochrome b556 subunit [Pseudomonas putida KT2440]
                           128
                           83.59
                           92.18
                           0
                           551.0
     

     
     
189327
                           gb|AAO55711.1|
                           (AE016863) succinate dehydrogenase, cytochrome b556 subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           128
                           81.25
                           94.53
                           4
                           556.0
     

     
     
189336
                           gb|AAA24616.1|
                           (M28989) succinate dehydrogenase [Escherichia coli]
                           133
                           54.13
                           69.92
                           9
                           356.0
     

     






      

          
GC ORFID: 47878How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1581Glimmer Score: 

          
Start: 1031144Stop: 1031530

          
Length: 387


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA1581 translation of PA1581Homolog Bit Score 246.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene990 (ORF: BLASTX 215.0), t_PA1581 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGAAAAAAGCCGTGAATAGCAAACGACCTGTAAACCTAGACCTAAGGACCATCAAACTCCCTGTCACCGCT 
TACACGTCCATTCTCCACCGTATCTCTGGCGTCATCCTGTTCCTCGGTATTGCCGTGCTGCTGTTCGCGCTC 
GACAAGTCGCTGAGTTCGGAAGAAGGCTTCGAGCAGGTGAAGGCGTGCCTGACCAGTCCCCTGGCCAAGCTG 
GTGATCTGGGGCCTGCTGTCTGCGCTGCTGTACCACCTGGTGGCCGGTGTTCGCCACCTGGTCATGGACGCT 
GGCGTCGGCGAGACGCTGGAAGGCGGTAAGCGTGGCTCCAAAATCGTCATCGCCATCGCGGTGGTGCTGATC 
GTTCTGGCGGGGGTATGGGTATGGTAA