ViewGene
Locus Name:
GeneID:
Location:

GeneID:2575
TrivialName: PA14_38680
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_38680
PAO1 Ortholog Locus:PA1998
Sequence Length:921
Protein Length:306
Start: 3448793
Stop: 3449713
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05386.1|AE004626_5 (AE004626) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 305/306 (99%), Positives = 305/306 (99%)
Sequence:
ATGACCGTCAAGCAGTTGCGCGCCTTCCTCGCCGTGGCGCAGAGCCTCAGCTTCGCCCAGGCCGGCGAACGC
CTGCACCTCTCCCAGCCGGCCCTGAGCCTGGCGATCAAGAGCCTGGAGGAAAGCCTCGGCGGTCCGCTGCTG
GAACGTACCACCCGCAGCGTCAGCCTCACCCCCGAGGGCGAGACCCTGCTGCCGCTGGCGCTGCGCCTGCTG
GCCGACTGGGACAATACCGAGGAATTGCTGCGCCAGCACTTCACCCTGCAACTGGGCAAGGTCTCCATCGCC
GCCATGCCCTCCTTCGCCGGCAACCTGCTGCCGCTGGTCTTGAAGACCTTTCGCGAACGCCACCCGCGGGTC
AACGTGGCGGTGCACGACGTGATCAACGAGCAGGTGCTGGAGATGGTCCGCAACCGACGCGTCGAGCTGGGC
ATCGCCTTCGAGCCGGAGTCCCTGGAAAACCTCGAGTTCACCCCGTTCTACAGCGACCGCTTCGTCGCCGTG
GTGCCGACCGGCTCGCCGCTGTCCGGGCAGGAGCGGATCAGTTGGCGCGAACTGCTCGGCGAGCCCTTCATT
ACCCTGCAACGCCCCTCGGCGGTGCGCCTGCTCCTGGAAGAAAGCGTGGCCGCCGAGCACGGCCGCTTGCCG
GTGGCGTTCGAGAGCCACCAACTGGTCACGGTCGGGCGGATGGTCGCCCAGGGACTGGGTGTCAGCGCCGTG
CCGACCCTGTGCATCCAGCAGATGCAGGAACTCGGCGCGCGCTGCCTGCCGCTCTACGCGCCGCAGGTGCAG
CGACGGGTCGGCCTGCTGCGGCTGAGCGAGCACAAGCTGTCCACCGCCGCCCAGGCCCTCAGCGACGTGCTG
CTGCATGGCACCGACTGGCGCTCGCTGGCGCTGCCGCAGGACCAGTCCACGGAGTGA
Translation:
MTVKQLRAFLAVAQSLSFAQAGERLHLSQPALSLAIKSLEESLGGPLLERTTRSVSLTPEGETLLPLALRLL
ADWDNTEELLRQHFTLQLGKVSIAAMPSFAGNLLPLVLKTFRERHPRVNVAVHDVINEQVLEMVRNRRVELG
IAFEPESLENLEFTPFYSDRFVAVVPTGSPLSGQERISWRELLGEPFITLQRPSAVRLLLEESVAAEHGRLP
VAFESHQLVTVGRMVAQGLGVSAVPTLCIQQMQELGARCLPLYAPQVQRRVGLLRLSEHKLSTAAQALSDVL
LHGTDWRSLALPQDQSTE*
AnnotationID:2583GeneID:2575
AnnotatorUID: diggins
Modification Date/Time: 2005-03-02 18:06:19
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA1998
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0583,pfam03466
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO56929.1| (AE016868) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 296

 Score =  416 bits (1070), Expect = e-116
 Identities = 217/289 (75%), Positives = 241/289 (83%)








 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  97.3% aligned
Score =  143 bits (361), Expect = 2e-35
Identities = 104/293 (35%), Positives = 151/293 (51%), Gaps = 7/293 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  95.7% aligned
Score =  124 bits (313), Expect = 1e-29
Identities = 61/200 (30%), Positives = 101/200 (50%), Gaps = 1/200 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5153




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22298




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32728




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2575_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2575
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4278
                           PA1998_tr
                           translation of PA1998
                           306
                           99.67
                           99.67
                           0
                           1516.0
     

     
     
125680
                           gb|AAG05386.1|AE004626_5
                           (AE004626) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           306
                           99.67
                           99.67
                           0
                           1516.0
     

     
     
125681
                           gb|AAO56929.1|
                           (AE016868) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           307
                           71.00
                           79.47
                           12
                           1064.0
     

     
     
125682
                           gb|AAN68729.1|AE016505_2
                           (AE016785) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           306
                           68.95
                           81.69
                           5
                           1059.0
     

     






      

          
GC ORFID: 45577How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1998Glimmer Score: 

          
Start: 1505118Stop: 1504198

          
Length: 921


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1998 translation of PA1998Homolog Bit Score 588.0

          
Other Homologs:  psyr_15may02_Scaffold9_revised_gene8079 (ORF: BLASTX 426.0), t_PA1998 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCGTCAAGCAGTTGCGCGCCTTCCTCGCCGTGGCGCAGAGCCTCAGCTTCGCCCAGGCCGGCGAACGC 
CTGCACCTCTCCCAGCCGGCCCTGAGCCTGGCGATCAAGAGCCTGGAGGAAAGCCTCGGCGGTCCGCTGCTG 
GAACGTACCACCCGCAGCGTCAGCCTCACCCCCGAGGGCGAGACCCTGCTGCCGCTGGCGCTGCGCCTGCTG 
GCCGACTGGGACAATACCGAGGAATTGCTGCGCCAGCACTTCACCCTGCAACTGGGCAAGGTCTCCATCGCC 
GCCATGCCCTCCTTCGCCGGCAACCTGCTGCCGCTGGTCTTGAAGACCTTTCGCGAACGCCACCCGCGGGTC 
AACGTGGCGGTGCACGACGTGATCAACGAGCAGGTGCTGGAGATGGTCCGCAACCGACGCGTCGAGCTGGGC 
ATCGCCTTCGAGCCGGAGTCCCTGGAAAACCTCGAGTTCACCCCGTTCTACAGCGACCGCTTCGTCGCCGTG 
GTGCCGACCGGCTCGCCGCTGTCCGGGCAGGAGCGGATCAGTTGGCGCGAACTGCTCGGCGAGCCCTTCATT 
ACCCTGCAACGCCCCTCGGCGGTGCGCCTGCTCCTGGAAGAAAGCGTGGCCGCCGAGCACGGCCGCTTGCCG 
GTGGCGTTCGAGAGCCACCAACTGGTCACGGTCGGGCGGATGGTCGCCCAGGGACTGGGTGTCAGCGCCGTG 
CCGACCCTGTGCATCCAGCAGATGCAGGAACTCGGCGCGCGCTGCCTGCCGCTCTACGCGCCGCAGGTGCAG 
CGACGGGTCGGCCTGCTGCGGCTGAGCGAGCACAAGCTGTCCACCGCCGCCCAGGCCCTCAGCGACGTGCTG 
CTGCATGGCACCGACTGGCGCTCGCTGGCGCTGCCGCAGGACCAGTCCACGGAGTGA