ViewGene
Locus Name:
GeneID:
Location:

GeneID:3469
TrivialName: PA14_64820
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_64820
PAO1 Ortholog Locus:PA4906
Sequence Length:714
Protein Length:237
Start: 5777190
Stop: 5776477
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08291.1|AE004903_9 (AE004903) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 236/237 (99%), Positives = 237/237 (100%)
Sequence:
ATGAGCAAACCGGGCCAACGCGTGCTGGCCGAGCTGCGCAAGCTGATCGCTTCCGGCGAACTCGCCGCCGGC
GAGCGCATCGTCGAGATTCCCACCGCCGAACGCCTGCAGGTCTCGCGCATGCCGGTGCGCATCGCCCTGCGT
ACCCTCGAGCAGGAAGGCCTGCTGTGCAAGACCGGGCGCGGCTACAGGGTGCGCGCGGTGACCCGCGAGGAT
ATCGCCGGCGCGGTCGAGGTGCGCGGCGTTCTGGAAGGCCTGGCGGCACGCCAGGCGGCCGAGCGCGGGCTG
TCCGCCGAGGCACGGGCGACCCTGGAGGAATGCCTGGCCGAGGGCGACCGATTGTTCGCCAACGGCCAGGTC
CTGCTGGAGGAGCTGGAGCGCTACCAGCGCATGAACATGCGCTTCCACCGCACCATCATCGAGGCCAGCGGC
AACCCGGCGATCGCCGTGGCGCTGGCGCGCAACGACCACCTGCCGTTCGCCTCGGTGAGCGCCCTGGCGGTG
GATCGCGACAATCTCGAGCAGGAATTCCGCCGTTTCAACTTCGCCCACATGCAGCACCACGCGGTGGTCGAC
GCGCTGGTCAACGGCCAGGGGGCGCGCGCCGAGGCGATCATGCGCGAGCACGCCAACGCGACCTTGCGCTAC
GCCGACTACTTCGATCCGGCGCGGAAGGGCGTCACCGTGCTTCACGGCGACGTCGCCGCCGACTAG
Translation:
MSKPGQRVLAELRKLIASGELAAGERIVEIPTAERLQVSRMPVRIALRTLEQEGLLCKTGRGYRVRAVTRED
IAGAVEVRGVLEGLAARQAAERGLSAEARATLEECLAEGDRLFANGQVLLEELERYQRMNMRFHRTIIEASG
NPAIAVALARNDHLPFASVSALAVDRDNLEQEFRRFNFAHMQHHAVVDALVNGQGARAEAIMREHANATLRY
ADYFDPARKGVTVLHGDVAAD*
AnnotationID:3477GeneID:3469
AnnotatorUID: diggins
Modification Date/Time: 2005-03-11 14:02:10
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:vanR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1802,COG2186
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69334.1|AE016570_11 (AE016788) transcriptional regulator VanR, putative [Pseudomonas
           putida KT2440]
          Length = 237

 Score =  319 bits (818), Expect = 8e-87
 Identities = 166/224 (74%), Positives = 193/224 (86%), Gaps = 1/224 (0%)

>gb|AAO56399.1| (AE016866) transcriptional regulator VanR [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 236

 Score =  309 bits (792), Expect = 8e-84
 Identities = 159/221 (71%), Positives = 185/221 (83%), Gaps = 1/221 (0%)








 
Structural Features:
COG1802, GntR, Transcriptional regulators [Transcription]
CD-Length = 230 residues,  87.4% aligned
Score =  105 bits (262), Expect = 6e-24
Identities = 74/214 (34%), Positives = 99/214 (46%), Gaps = 14/214 (6%)

COG2186, FadR, Transcriptional regulators [Transcription]
CD-Length = 241 residues,  90.5% aligned
Score = 77.0 bits (189), Expect = 2e-15
Identities = 69/231 (29%), Positives = 93/231 (40%), Gaps = 33/231 (14%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6941




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24083




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35154




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3469_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3469
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5527
                           PA4906_tr
                           translation of PA4906
                           237
                           99.57
                           99.99
                           0
                           1174.0
     

     
     
153998
                           gb|AAG08291.1|AE004903_9
                           (AE004903) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           237
                           99.57
                           99.99
                           0
                           1174.0
     

     
     
153999
                           gb|AAN69334.1|AE016570_11
                           (AE016788) transcriptional regulator VanR, putative [Pseudomonas putida KT2440]
                           248
                           68.14
                           79.03
                           22
                           823.0
     

     
     
154000
                           emb|CAB64602.1|
                           (AJ252091) Vanr protein [Pseudomonas putida]
                           248
                           67.33
                           77.82
                           22
                           810.0
     

     
     
154001
                           gb|AAO56399.1|
                           (AE016866) transcriptional regulator VanR [Pseudomonas syringae pv. tomato str. DC3000]
                           243
                           66.66
                           77.77
                           13
                           784.0
     

     






      

          
GC ORFID: 46471How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4906Glimmer Score: 

          
Start: 5040871Stop: 5040158

          
Length: 714


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA4906 translation of PA4906Homolog Bit Score 456.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1148 (ORF: BLASTX 313.0), t_PA4906 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCAAACCGGGCCAACGCGTGCTGGCCGAGCTGCGCAAGCTGATCGCTTCCGGCGAACTCGCCGCCGGC 
GAGCGCATCGTCGAGATTCCCACCGCCGAACGCCTGCAGGTCTCGCGCATGCCGGTGCGCATCGCCCTGCGT 
ACCCTCGAGCAGGAAGGCCTGCTGTGCAAGACCGGGCGCGGCTACAGGGTGCGCGCGGTGACCCGCGAGGAT 
ATCGCCGGCGCGGTCGAGGTGCGCGGCGTTCTGGAAGGCCTGGCGGCACGCCAGGCGGCCGAGCGCGGGCTG 
TCCGCCGAGGCACGGGCGACCCTGGAGGAATGCCTGGCCGAGGGCGACCGATTGTTCGCCAACGGCCAGGTC 
CTGCTGGAGGAGCTGGAGCGCTACCAGCGCATGAACATGCGCTTCCACCGCACCATCATCGAGGCCAGCGGC 
AACCCGGCGATCGCCGTGGCGCTGGCGCGCAACGACCACCTGCCGTTCGCCTCGGTGAGCGCCCTGGCGGTG 
GATCGCGACAATCTCGAGCAGGAATTCCGCCGTTTCAACTTCGCCCACATGCAGCACCACGCGGTGGTCGAC 
GCGCTGGTCAACGGCCAGGGGGCGCGCGCCGAGGCGATCATGCGCGAGCACGCCAACGCGACCTTGCGCTAC 
GCCGACTACTTCGATCCGGCGCGGAAGGGCGTCACCGTGCTTCACGGCGACGTCGCCGCCGACTAG