ViewGene
Locus Name:
GeneID:
Location:

GeneID:1873
TrivialName: PA14_18910
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_18910
PAO1 Ortholog Locus:PA3492
Sequence Length:1035
Protein Length:344
Start: 1630886
Stop: 1629852
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06880.1|AE004770_5 (AE004770) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 344/344 (100%), Positives = 344/344 (100%)
Sequence:
ATGGCCCTGCCCCGCCCCACCTCGCCCCACGCCCGCGGCTCCAACCGTACCCCGGCGATCATGCGCCTGGTG
CTCGGCGCCTGCGTCCCCGGCCTGCTGACGCTGACCTGGCTGTACGGCCCGGGCACCCTGCTCAACCTGGCC
TGGGCCAGCCTCGTCGCGCTGGCCTGCGAGGCCGCCATGCTGGCCCTGCGCAAACGTCCGCCGGGGGTGTTC
CTCAAGGACGGCAGCGCGCTGGTCACCGCCCTGTTGCTGGCCGTCGCCCTGCCGCCCTACGCCCCCTGGTGG
CTGACCCTGGTGGCGACCTTCTTCGCCCTGGTGTTCGGCAAGCACCTGTACGGCGGCCTCGGACAGAACCCG
TTCAACCCGGCGATGCTCGGCTACGTCGTGGCGCTGGTCTCGTTTCCCCTGGAAATGACCCGCTGGCCCTCG
CCGGACAGCGCCCTCGGCCTGCCCGACAGCCTCCGCGAATTCCTCGGCCTCGCTACCCGACCGGACGCCTGG
GCCCACGCCACCGCCCTCGACGTGCTGAAGACCGACCGCAGCCTGACCGTCGACGAGCTGTTCGCCGGCAAC
CCGGCCTTCGGCCACCTCGGTAGCGCCGGCAGCGAGTGGGTCAACCTGGCGTTCCTCCTCGGCGGCCTGTTC
CTGCTCTGGCGCCGGCTGTTCACCTGGCACGCGCCGCTGGGCATGCTCGCCGGCCTGTTCGCCATGAGCCTG
CTGTTCTGGAATGGTTCCGGCTCCGATTCCCATGGCTCGCCACTGTTCCATCTGTTCAGCGGGGCGACCATG
CTCGGCGCCTTCTTCATCGTCACCGACCCGGTGTCCGGCGCCACCAGCAATCGCGGGCGGCTGGTCTTCGGC
CTCGGCGTCGGCGTCCTCACCTACGTCATCCGCGCCTGGGGCGGCTATCCCGATGGCGTGGCGTTCGCCGTG
CTGCTGATGAACCTGGCGGCGCCGACCATCGACTACTACACCCGGCCGCGCACCTACGGCCATCGCAAGGCC
GAGCGCGGCTTCAAGGCAGGCGACTGA
Translation:
MALPRPTSPHARGSNRTPAIMRLVLGACVPGLLTLTWLYGPGTLLNLAWASLVALACEAAMLALRKRPPGVF
LKDGSALVTALLLAVALPPYAPWWLTLVATFFALVFGKHLYGGLGQNPFNPAMLGYVVALVSFPLEMTRWPS
PDSALGLPDSLREFLGLATRPDAWAHATALDVLKTDRSLTVDELFAGNPAFGHLGSAGSEWVNLAFLLGGLF
LLWRRLFTWHAPLGMLAGLFAMSLLFWNGSGSDSHGSPLFHLFSGATMLGAFFIVTDPVSGATSNRGRLVFG
LGVGVLTYVIRAWGGYPDGVAFAVLLMNLAAPTIDYYTRPRTYGHRKAERGFKAGD*
AnnotationID:1882GeneID:1873
AnnotatorUID: diggins
Modification Date/Time: 2005-04-19 12:12:54
Gene Name:
Confidence Code:3
GeneProduct:putative NADH:ubiquinone oxidoreductase, subunit RnfD
Cell Localization:()
Synonyms:rnfD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:putative electron transport complex protein rnfD
Functional Category Confidence Code:5
COGs:pfam03116,COG4658
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAF94175.1| (AE004183) RnfD-related protein [Vibrio cholerae]
          Length = 348

 Score =  326 bits (835), Expect = 1e-88
 Identities = 174/353 (49%), Positives = 221/353 (62%), Gaps = 25/353 (7%)

>gb|AAL20378.1| (AE008763) putative oxidoreductase [Salmonella typhimurium LT2]
          Length = 352

 Score =  319 bits (817), Expect = 2e-86
 Identities = 171/346 (49%), Positives = 221/346 (63%), Gaps = 18/346 (5%)

>gb|AAO68974.1| (AE016838) putative membrane protein [Salmonella enterica subsp.
           enterica serovar Typhi Ty2]
          Length = 352

 Score =  318 bits (815), Expect = 3e-86
 Identities = 171/346 (49%), Positives = 221/346 (63%), Gaps = 18/346 (5%)






 
Structural Features:
pfam03116, NQR2_RnfD_RnfE, NQR2, RnfD, RnfE family.
CD-Length = 342 residues,  98.2% aligned
Score =  262 bits (671), Expect = 4e-71
Identities = 129/339 (38%), Positives = 178/339 (52%), Gaps = 15/339 (4%)

COG4658, RnfD, Predicted NADH:ubiquinone oxidoreductase, subunit RnfD 
[Energy production and conversion]
CD-Length = 338 residues, 100.0% aligned
Score =  392 bits (1008), Expect = 4e-110
Identities = 188/341 (55%), Positives = 222/341 (65%), Gaps = 9/341 (2%)







   
Genomic Context:






   
Comment:
other possible gene name: ydgO


















    ReferenceID:3749




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20896




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32052




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1873_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1873
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3312
                           PA3492_tr
                           translation of PA3492
                           344
                           99.99
                           99.99
                           0
                           1819.0
     

     
     
102768
                           gb|AAG06880.1|AE004770_5
                           (AE004770) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           344
                           99.99
                           99.99
                           0
                           1819.0
     

     
     
102769
                           gb|AAN66720.1|AE016300_5
                           (AE016778) membrane protein, putative [Pseudomonas putida KT2440]
                           344
                           55.23
                           66.27
                           21
                           951.0
     

     
     
102783
                           gb|AAN55542.1|AE015693_4
                           (AE015693) membrane protein, putative [Shewanella oneidensis MR-1]
                           367
                           49.59
                           61.30
                           41
                           823.0
     

     
     
102770
                           gb|AAF94175.1|
                           (AE004183) RnfD-related protein [Vibrio cholerae O1 biovar eltor str. N16961]
                           364
                           47.80
                           60.71
                           36
                           855.0
     

     






      

          
GC ORFID: 44875How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3492Glimmer Score: 

          
Start: 3323048Stop: 3324082

          
Length: 1035


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3492 translation of PA3492Homolog Bit Score 705.0

          
Other Homologs:  t_PA3492 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCCTGCCCCGCCCCACCTCGCCCCACGCCCGCGGCTCCAACCGTACCCCGGCGATCATGCGCCTGGTG 
CTCGGCGCCTGCGTCCCCGGCCTGCTGACGCTGACCTGGCTGTACGGCCCGGGCACCCTGCTCAACCTGGCC 
TGGGCCAGCCTCGTCGCGCTGGCCTGCGAGGCCGCCATGCTGGCCCTGCGCAAACGTCCGCCGGGGGTGTTC 
CTCAAGGACGGCAGCGCGCTGGTCACCGCCCTGTTGCTGGCCGTCGCCCTGCCGCCCTACGCCCCCTGGTGG 
CTGACCCTGGTGGCGACCTTCTTCGCCCTGGTGTTCGGCAAGCACCTGTACGGCGGCCTCGGACAGAACCCG 
TTCAACCCGGCGATGCTCGGCTACGTCGTGGCGCTGGTCTCGTTTCCCCTGGAAATGACCCGCTGGCCCTCG 
CCGGACAGCGCCCTCGGCCTGCCCGACAGCCTCCGCGAATTCCTCGGCCTCGCTACCCGACCGGACGCCTGG 
GCCCACGCCACCGCCCTCGACGTGCTGAAGACCGACCGCAGCCTGACCGTCGACGAGCTGTTCGCCGGCAAC 
CCGGCCTTCGGCCACCTCGGTAGCGCCGGCAGCGAGTGGGTCAACCTGGCGTTCCTCCTCGGCGGCCTGTTC 
CTGCTCTGGCGCCGGCTGTTCACCTGGCACGCGCCGCTGGGCATGCTCGCCGGCCTGTTCGCCATGAGCCTG 
CTGTTCTGGAATGGTTCCGGCTCCGATTCCCATGGCTCGCCACTGTTCCATCTGTTCAGCGGGGCGACCATG 
CTCGGCGCCTTCTTCATCGTCACCGACCCGGTGTCCGGCGCCACCAGCAATCGCGGGCGGCTGGTCTTCGGC 
CTCGGCGTCGGCGTCCTCACCTACGTCATCCGCGCCTGGGGCGGCTATCCCGATGGCGTGGCGTTCGCCGTG 
CTGCTGATGAACCTGGCGGCGCCGACCATCGACTACTACACCCGGCCGCGCACCTACGGCCATCGCAAGGCC 
GAGCGCGGCTTCAAGGCAGGCGACTGA