ViewGene
Locus Name:
GeneID:
Location:

GeneID:4841
TrivialName: PA14_38430
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_38430
PAO1 Ortholog Locus:PA2016
Sequence Length:405
Protein Length:134
Start: 3427393
Stop: 3427797
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05404.1|AE004628_2 (AE004628) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 129/134 (96%), Positives = 130/134 (97%)
Sequence:
ATGTCCACCACCTACACCATCTCCGATCTCGCCCGCGAACTGGACATCACCACCCGCGCCATCCGCTTCTAC
GAGGAGCAAGGCATGCTCTCCCCCGAGCGACGCGGCCAGGAACGCATCTATTCGCCGCGCGACAAGGTCAGC
CTGAAGCTGATCCTGCGCGGCAAGCGCATCGGTTTTTCCCTCGCCGAATGCCGCGAACTGATCGAGCTCTAC
GACCCGGACCCGAGCAGCGGCAACCAGAAGCAGTTGAACACCATGCTGGAGAAGATCGCCGAGCGCCGCGCC
CAGCTGGAACAACAGTTGCTGGACATCGAACAGATGCAGCTGGAACTGGATACTGCCGAGGAGCGCTGTCGA
GCTGCGCTGATTAAAAGCTATAACAAACAACCAGTTGCAACATAA
Translation:
MSTTYTISDLARELDITTRAIRFYEEQGMLSPERRGQERIYSPRDKVSLKLILRGKRIGFSLAECRELIELY
DPDPSSGNQKQLNTMLEKIAERRAQLEQQLLDIEQMQLELDTAEERCRAALIKSYNKQPVAT*
AnnotationID:4846GeneID:4841
AnnotatorUID: danlee
Modification Date/Time: 2005-09-26 13:01:38
Gene Name:gnyR
Confidence Code:1
GeneProduct:Regulatory gene of gnyRDBHAL cluster, GnyR
Cell Localization:(1) Cytoplasmic
Synonyms:PA2016
Cell Localization Confidence Code:3
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0789,cd01108,cd00592
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69140.1|AE016547_8 (AE016787) transcriptional regulator, putative [Pseudomonas putida
           KT2440]
          Length = 132

 Score =  205 bits (522), Expect = 3e-53
 Identities = 109/131 (83%), Positives = 118/131 (90%), Gaps = 3/131 (2%)

>gb|AAO56244.1| (AE016865) transcriptional regulator, MerR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 130

 Score =  197 bits (502), Expect = 6e-51
 Identities = 104/125 (83%), Positives = 111/125 (88%), Gaps = 2/125 (1%)








 
Structural Features:
COG0789, SoxR, Predicted transcriptional regulators [Transcription]
CD-Length = 124 residues,  96.8% aligned
Score = 73.6 bits (180), Expect = 7e-15
Identities = 39/120 (32%), Positives = 67/120 (55%), Gaps = 2/120 (1%)

cd01108, HTH_CueR, Helix-turn-helix transcription regulator CueR.
CD-Length = 126 residues,  88.9% aligned
Score = 74.8 bits (184), Expect = 3e-15

cd00592, HTH_MERR, Helix-turn-helix transcription regulator MERR, N-terminal domain. 
CD-Length = 99 residues, 100.0% aligned
Score = 66.1 bits (161), Expect = 2e-12







   
Genomic Context:






   
Comment:


















    ReferenceID:9682




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26823




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32680




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4841_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4841
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7218
                           PA2016_tr
                           translation of PA2016
                           134
                           96.26
                           97.01
                           0
                           641.0
     

     
     
188789
                           gb|AAG05404.1|AE004628_2
                           (AE004628) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           134
                           96.26
                           97.01
                           0
                           641.0
     

     
     
188790
                           gb|AAN69140.1|AE016547_8
                           (AE016787) transcriptional regulator, putative [Pseudomonas putida KT2440]
                           135
                           80.74
                           87.40
                           4
                           521.0
     

     
     
188791
                           gb|AAO56244.1|
                           (AE016865) transcriptional regulator, MerR family [Pseudomonas syringae pv. tomato str. DC3000]
                           137
                           77.37
                           82.48
                           10
                           500.0
     

     
     
188792
                           gb|AAN54950.1|AE015633_2
                           (AE015633) transcriptional regulator, putative [Shewanella oneidensis MR-1]
                           140
                           55.71
                           72.85
                           12
                           380.0
     

     






      

          
GC ORFID: 47843How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2016Glimmer Score: 

          
Start: 1526518Stop: 1526114

          
Length: 405


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2016 translation of PA2016Homolog Bit Score 251.0

          
Other Homologs:  psyr_15may02_Scaffold9_revised_gene8066 (ORF: BLASTX 200.0), t_PA2016 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCCACCACCTACACCATCTCCGATCTCGCCCGCGAACTGGACATCACCACCCGCGCCATCCGCTTCTAC 
GAGGAGCAAGGCATGCTCTCCCCCGAGCGACGCGGCCAGGAACGCATCTATTCGCCGCGCGACAAGGTCAGC 
CTGAAGCTGATCCTGCGCGGCAAGCGCATCGGTTTTTCCCTCGCCGAATGCCGCGAACTGATCGAGCTCTAC 
GACCCGGACCCGAGCAGCGGCAACCAGAAGCAGTTGAACACCATGCTGGAGAAGATCGCCGAGCGCCGCGCC 
CAGCTGGAACAACAGTTGCTGGACATCGAACAGATGCAGCTGGAACTGGATACTGCCGAGGAGCGCTGTCGA 
GCTGCGCTGATTAAAAGCTATAACAAACAACCAGTTGCAACATAA