ViewGene
Locus Name:
GeneID:
Location:

GeneID:2468
TrivialName: PA14_06320
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_06320
PAO1 Ortholog Locus:PA0485
Sequence Length:897
Protein Length:298
Start: 560017
Stop: 559121
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03874.1|AE004486_3 (AE004486) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 297/298 (99%), Positives = 297/298 (99%)
Sequence:
ATGGCGACCGCCAACCTCCGTCGGGGCTATGTCCTCGGCCTGACGGCTTATGTGATCTGGGGATTGTTCCCG
CTCTACTTCAAACTGCTCGAACGCATTCCCGCGGTGGAAATCATCGTCCAGCGCGCGGTCTGGTCGGCCCTG
TTCGGCGCCGTCCTGCTGCTGTTCTGGAAACACCCGGGCTGGTGGCGCGAACTGCGCCAGAATCCGCAGCGC
TTCGTCGTGCTGGCCGCCAGCGGACTGCTGATCGCCAGCAACTGGATGACCTATGTCTGGGCGGTGAACAAC
GGCCACATGCTGGAAGCCAGCCTGGGCTACTACATCAATCCGCTGATCAACGTGATGCTCGGCATGTTGCTG
CTCAAGGAACGCCTGCGTCCTCTGCAATGGCTGGCGGTGGCCCTGGCTTCGCTGGGCGTGGCGCAGCAGGTC
TGGCAACTCGGCAGCCTGCCCTGGGTGTCGCTGGTGCTGGCCCTGACCTTCGGCTTCTACGGCCTGATCCGC
AAAAAGGCGCCGGTCGCCGCGCTGCCCGGACTGGTGGTGGAAACCTGGCTGCTGCTGCCACTGGCGCTGGTC
TGGTTGCTGTTGTTCGCCGACGGGCCGACCAGCGAAACGGCTTTCTGGAGCACCCCGGAAGCCCTGTGGGTG
GTCGCCGCGGGCCCGGTGACGCTGGTTCCGCTGGTCTGCTTCAACGCTGCGGCAAGGCACCTGCCCTACGCC
ACTCTGGGCTTCCTGCAATACCTGGCACCGACGCTGGTCCTGCTACAGGCGATCCTGCTGTTCGGCGAGCAC
CTGGACTCCAGCCGCCTGACCGCCTTCGCTTTCATCTGGCTCGCCCTGGCCGTCTACAGCTTCGACGCCTGG
CGCAGCCTGCGCCGCCTTCCCCAGCCGGGCTGA
Translation:
MATANLRRGYVLGLTAYVIWGLFPLYFKLLERIPAVEIIVQRAVWSALFGAVLLLFWKHPGWWRELRQNPQR
FVVLAASGLLIASNWMTYVWAVNNGHMLEASLGYYINPLINVMLGMLLLKERLRPLQWLAVALASLGVAQQV
WQLGSLPWVSLVLALTFGFYGLIRKKAPVAALPGLVVETWLLLPLALVWLLLFADGPTSETAFWSTPEALWV
VAAGPVTLVPLVCFNAAARHLPYATLGFLQYLAPTLVLLQAILLFGEHLDSSRLTAFAFIWLALAVYSFDAW
RSLRRLPQPG*
AnnotationID:2476GeneID:2468
AnnotatorUID: diggins
Modification Date/Time: 2005-03-27 17:05:41
Gene Name:
Confidence Code:3
GeneProduct:putative permease
Cell Localization:()
Synonyms:rarD
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(15) Membrane proteins
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2962
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65989.1|AE016228_2 (AE016775) rarD protein [Pseudomonas putida KT2440]
          Length = 295

 Score =  468 bits (1205), Expect = e-131
 Identities = 221/293 (75%), Positives = 257/293 (87%)

>gb|AAO54027.1| (AE016857) rarD protein [Pseudomonas syringae pv. tomato str.
           DC3000]
          Length = 295

 Score =  458 bits (1178), Expect = e-128
 Identities = 211/292 (72%), Positives = 246/292 (84%)








 
Structural Features:
COG2962, RarD, Predicted permeases
CD-Length = 293 residues,  99.7% aligned
Score =  295 bits (757), Expect = 4e-81
Identities = 157/293 (53%), Positives = 202/293 (68%), Gaps = 1/293 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4939




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22085




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33801




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2468_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2468
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4141
                           PA0485_tr
                           translation of PA0485
                           298
                           99.66
                           99.66
                           0
                           1551.0
     

     
     
123292
                           gb|AAG03874.1|AE004486_3
                           (AE004486) conserved hypothetical protein [Pseudomonas aeruginosa PAO1]
                           298
                           99.66
                           99.66
                           0
                           1551.0
     

     
     
123293
                           gb|AAN65989.1|AE016228_2
                           (AE016775) rarD protein [Pseudomonas putida KT2440]
                           298
                           74.16
                           86.24
                           3
                           1202.0
     

     
     
123295
                           emb|CAA72724.1|
                           (Y11998) hypothetical protein [Pseudomonas fluorescens]
                           298
                           71.47
                           83.89
                           4
                           1169.0
     

     
     
123294
                           gb|AAO54027.1|
                           (AE016857) rarD protein [Pseudomonas syringae pv. tomato str. DC3000]
                           301
                           70.43
                           82.05
                           9
                           1174.0
     

     






      

          
GC ORFID: 45470How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0485Glimmer Score: 

          
Start: 6361359Stop: 6360463

          
Length: 897


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0485 translation of PA0485Homolog Bit Score 602.0

          
Other Homologs:  t_PA0485 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCGACCGCCAACCTCCGTCGGGGCTATGTCCTCGGCCTGACGGCTTATGTGATCTGGGGATTGTTCCCG 
CTCTACTTCAAACTGCTCGAACGCATTCCCGCGGTGGAAATCATCGTCCAGCGCGCGGTCTGGTCGGCCCTG 
TTCGGCGCCGTCCTGCTGCTGTTCTGGAAACACCCGGGCTGGTGGCGCGAACTGCGCCAGAATCCGCAGCGC 
TTCGTCGTGCTGGCCGCCAGCGGACTGCTGATCGCCAGCAACTGGATGACCTATGTCTGGGCGGTGAACAAC 
GGCCACATGCTGGAAGCCAGCCTGGGCTACTACATCAATCCGCTGATCAACGTGATGCTCGGCATGTTGCTG 
CTCAAGGAACGCCTGCGTCCTCTGCAATGGCTGGCGGTGGCCCTGGCTTCGCTGGGCGTGGCGCAGCAGGTC 
TGGCAACTCGGCAGCCTGCCCTGGGTGTCGCTGGTGCTGGCCCTGACCTTCGGCTTCTACGGCCTGATCCGC 
AAAAAGGCGCCGGTCGCCGCGCTGCCCGGACTGGTGGTGGAAACCTGGCTGCTGCTGCCACTGGCGCTGGTC 
TGGTTGCTGTTGTTCGCCGACGGGCCGACCAGCGAAACGGCTTTCTGGAGCACCCCGGAAGCCCTGTGGGTG 
GTCGCCGCGGGCCCGGTGACGCTGGTTCCGCTGGTCTGCTTCAACGCTGCGGCAAGGCACCTGCCCTACGCC 
ACTCTGGGCTTCCTGCAATACCTGGCACCGACGCTGGTCCTGCTACAGGCGATCCTGCTGTTCGGCGAGCAC 
CTGGACTCCAGCCGCCTGACCGCCTTCGCTTTCATCTGGCTCGCCCTGGCCGTCTACAGCTTCGACGCCTGG 
CGCAGCCTGCGCCGCCTTCCCCAGCCGGGCTGA