ViewGene
Locus Name:
GeneID:
Location:

GeneID:4726
TrivialName: PA14_63170
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_63170
PAO1 Ortholog Locus:PA4778
Sequence Length:399
Protein Length:132
Start: 5638181
Stop: 5638579
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08164.1|AE004891_6 (AE004891) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 132/132 (100%), Positives = 132/132 (100%)
Sequence:
ATGAACATCGGTGAAGCGGCGAAGAAAAGCGGACTGACGCCGAAGATGATCCGTTACTACGAGTCCATCGAG
CTGCTCCGCCCAGCCGGACGCAGCGCCAGCGGCTACCGCCACTACAACGAGAACGACCTGCATACCCTGGCG
TTCATCCGCCGTTCGCGGGACCTCGGTTTCTCCCTCGACGAAGTCGGCAAGCTGCTCACCCTCTGGCAGGAT
CGCCAGCGTGCCAGTGCCGACGTCAAGGCCCTGGCGGCGCAGCACGTGCGCGAGCTGAATCGCAAGATCGAG
GAGCTCAGCACCCTGCGCGACACCCTGCAGGACCTGGTCGAGCACTGCCAGGGCGACCACCGCCCCGACTGC
CCGATCCTCAAGGACCTGGCGTCTGGCTGCTGCCACTGA
Translation:
MNIGEAAKKSGLTPKMIRYYESIELLRPAGRSASGYRHYNENDLHTLAFIRRSRDLGFSLDEVGKLLTLWQD
RQRASADVKALAAQHVRELNRKIEELSTLRDTLQDLVEHCQGDHRPDCPILKDLASGCCH*
AnnotationID:4731GeneID:4726
AnnotatorUID: diggins
Modification Date/Time: 2005-03-09 12:12:25
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:cueR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:cd01108,COG0789,cd00592
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAM88669.1|AF390440_5 (AF390440) transcriptional regulator [Pseudomonas putida]
          Length = 137

 Score =  218 bits (554), Expect = 6e-57
 Identities = 105/131 (80%), Positives = 117/131 (89%)

>gb|AAN66212.1|AE016249_4 (AE016776) transcriptional regulator, MerR family [Pseudomonas
           putida KT2440]
          Length = 136

 Score =  209 bits (532), Expect = 2e-54
 Identities = 104/136 (76%), Positives = 116/136 (85%), Gaps = 4/136 (2%)

>emb|CAE33505.1| (BX640446) MerR-family transcriptional regulator [Bordetella
           bronchiseptica]
          Length = 132

 Score =  164 bits (414), Expect = 1e-40
 Identities = 75/128 (58%), Positives = 101/128 (78%)






 
Structural Features:
cd01108, HTH_CueR, Helix-turn-helix transcription regulator CueR.
CD-Length = 126 residues,  98.4% aligned
Score =  150 bits (380), Expect = 6e-38

COG0789, SoxR, Predicted transcriptional regulators [Transcription]
CD-Length = 124 residues,  96.8% aligned
Score =  100 bits (251), Expect = 4e-23
Identities = 43/120 (35%), Positives = 62/120 (51%), Gaps = 1/120 (0%)

cd00592, HTH_MERR, Helix-turn-helix transcription regulator MERR, 
N-terminal domain.
CD-Length = 99 residues, 100.0% aligned
Score = 90.4 bits (224), Expect = 6e-20







   
Genomic Context:






   
Comment:
other possible gene name: ybbI


















    ReferenceID:9453




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:26593




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37663




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4726_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4726
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7096
                           PA4778_tr
                           translation of PA4778
                           132
                           99.99
                           99.99
                           0
                           692.0
     

     
     
186898
                           gb|AAG08164.1|AE004891_6
                           (AE004891) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           132
                           99.99
                           99.99
                           0
                           692.0
     

     
     
186899
                           gb|AAM88669.1|AF390440_5
                           (AF390440) transcriptional regulator [Pseudomonas putida]
                           137
                           76.64
                           85.40
                           5
                           552.0
     

     
     
186900
                           gb|AAN66212.1|AE016249_4
                           (AE016776) transcriptional regulator, MerR family [Pseudomonas putida KT2440]
                           136
                           76.47
                           85.29
                           4
                           535.0
     

     
     
186901
                           gb|AAO54291.1|
                           (AE016858) transcriptional regulator, heavy metal-dependent [Pseudomonas syringae pv. tomato str. DC3000]
                           133
                           75.93
                           87.96
                           1
                           520.0
     

     






      

          
GC ORFID: 47728How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4778Glimmer Score: 

          
Start: 4901861Stop: 4902259

          
Length: 399


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4778 translation of PA4778Homolog Bit Score 271.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3609 (ORF: BLASTX 214.0), t_PA4778 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAACATCGGTGAAGCGGCGAAGAAAAGCGGACTGACGCCGAAGATGATCCGTTACTACGAGTCCATCGAG 
CTGCTCCGCCCAGCCGGACGCAGCGCCAGCGGCTACCGCCACTACAACGAGAACGACCTGCATACCCTGGCG 
TTCATCCGCCGTTCGCGGGACCTCGGTTTCTCCCTCGACGAAGTCGGCAAGCTGCTCACCCTCTGGCAGGAT 
CGCCAGCGTGCCAGTGCCGACGTCAAGGCCCTGGCGGCGCAGCACGTGCGCGAGCTGAATCGCAAGATCGAG 
GAGCTCAGCACCCTGCGCGACACCCTGCAGGACCTGGTCGAGCACTGCCAGGGCGACCACCGCCCCGACTGC 
CCGATCCTCAAGGACCTGGCGTCTGGCTGCTGCCACTGA