ViewGene
Locus Name:
GeneID:
Location:

GeneID:2471
TrivialName: PA14_71750
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71750
PAO1 Ortholog Locus:PA5437
Sequence Length:936
Protein Length:311
Start: 6392884
Stop: 6393819
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08822.1|AE004956_6 (AE004956) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 310/311 (99%), Positives = 310/311 (99%)
Sequence:
ATGCGTATGACATTACGGCAGCTTCAGGTTTTTCGTGCCGTATGCGAGAGCCGCTCCTACAGCCGGGCGGCG
GAGGAAATGGCCCTGACCCAGCCGGCGGTCAGCTTGCAGATCCGCCAACTGGAAGAGCTGGTCGGCCAGCCG
CTGTTCGAGTACGTCGGCAAGAAGCTCTACCTGACCGATGCCGCCGAAGCCCTGCTGAAGACCAGCACCGAC
CTGTTCCAGCGCCTGGAAAGCCTGGACATGCAGCTCTCGGATCTGAAGGGCTCGCTGCAGGGCCAGTTGCGC
CTGGCGGTGGAGTCCAGCGCCAAGTACATCACCCCGCACCTGTTCAAGGCGTTCCAGAACCTGCATCCGGAA
GTCAGCCTGAGCCTGACGGTGGTCAACCGCACCCAGGTGATCAAGCGCTTGGCCGACAACCGCGACGACCTG
GTGATCATGTCCCTGGTACCGCAGGACATGGCCCTGGAGTTCCTGCCCTTCCTGAACAACCCGATCATCGCC
GTGGCGCCGCCGGACCATCCGCTGTGCAACGCCGCGAAGCTGGCCCTGAAGGACCTGGAGCCCTTCCCGCTA
CTGGTCCGCGAACCGGGCTCGGGCACCCGCAAGGCTTGCGAGGAGTTCTTCCAGCAACGCCGCGCGCACTTC
TCGCAGATCCAGGAGATCGCCTCGCTGGAGTCCCTGCGCGAAGGGGTGATCACCGGCCTCGGCCTGGCCCTG
CTGCCGCGCCATGCGGCGCACCAGGAACTGGCCAACGGCCTGCTGCGCGAACTACCGGTGGAGGAATTGCCG
CTCTATCGCAGCTGGTGCCTGGTGCACGCCAAGGGCAAGCGCCTGAGCCCGGTGGCCCAGGCGTTCGTCGCC
TTCGTCCGCGAGGAGCGGGCGCTGATCAGCCAGCTCGCTGGGCGCTTCGCCGGCCCTGGCGGTTCGAGCTGA
Translation:
MRMTLRQLQVFRAVCESRSYSRAAEEMALTQPAVSLQIRQLEELVGQPLFEYVGKKLYLTDAAEALLKTSTD
LFQRLESLDMQLSDLKGSLQGQLRLAVESSAKYITPHLFKAFQNLHPEVSLSLTVVNRTQVIKRLADNRDDL
VIMSLVPQDMALEFLPFLNNPIIAVAPPDHPLCNAAKLALKDLEPFPLLVREPGSGTRKACEEFFQQRRAHF
SQIQEIASLESLREGVITGLGLALLPRHAAHQELANGLLRELPVEELPLYRSWCLVHAKGKRLSPVAQAFVA
FVREERALISQLAGRFAGPGGSS*
AnnotationID:2479GeneID:2471
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 15:03:46
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA5437
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|AAN70913.1|AE016735_6 (AE016794) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 320

 Score =  457 bits (1176), Expect = e-128
 Identities = 227/306 (74%), Positives = 263/306 (85%)

>gb|AAO58931.1| (AE016876) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 311

 Score =  447 bits (1149), Expect = e-125
 Identities = 223/306 (72%), Positives = 259/306 (84%)

>dbj|BAC09589.1| (AP005376) transcriptional regulator [Thermosynechococcus elongatus
           BP-1]
          Length = 318

 Score =  244 bits (622), Expect = 6e-64
 Identities = 127/290 (43%), Positives = 184/290 (63%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.3% aligned
Score =  150 bits (380), Expect = 1e-37
Identities = 106/296 (35%), Positives = 155/296 (52%), Gaps = 7/296 (2%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues, 100.0% aligned
Score =  147 bits (372), Expect = 2e-36
Identities = 82/209 (39%), Positives = 117/209 (55%), Gaps = 1/209 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4945




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22091




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34654




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2471_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2471
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4146
                           PA5437_tr
                           translation of PA5437
                           311
                           99.67
                           99.67
                           0
                           1550.0
     

     
     
123401
                           gb|AAG08822.1|AE004956_6
                           (AE004956) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           311
                           99.67
                           99.67
                           0
                           1550.0
     

     
     
123403
                           gb|AAO58931.1|
                           (AE016876) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           311
                           71.70
                           83.60
                           0
                           1142.0
     

     
     
123402
                           gb|AAN70913.1|AE016735_6
                           (AE016794) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           320
                           71.25
                           83.12
                           9
                           1170.0
     

     
     
123409
                           gb|AAC32308.1|
                           (U87283) CbbRI [Rhodobacter capsulatus]
                           311
                           42.44
                           59.16
                           13
                           612.0
     

     






      

          
GC ORFID: 45473How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5437Glimmer Score: 

          
Start: 5656573Stop: 5657508

          
Length: 936


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5437 translation of PA5437Homolog Bit Score 601.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene2915 (ORF: BLASTX 455.0), t_PA5437 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGTATGACATTACGGCAGCTTCAGGTTTTTCGTGCCGTATGCGAGAGCCGCTCCTACAGCCGGGCGGCG 
GAGGAAATGGCCCTGACCCAGCCGGCGGTCAGCTTGCAGATCCGCCAACTGGAAGAGCTGGTCGGCCAGCCG 
CTGTTCGAGTACGTCGGCAAGAAGCTCTACCTGACCGATGCCGCCGAAGCCCTGCTGAAGACCAGCACCGAC 
CTGTTCCAGCGCCTGGAAAGCCTGGACATGCAGCTCTCGGATCTGAAGGGCTCGCTGCAGGGCCAGTTGCGC 
CTGGCGGTGGAGTCCAGCGCCAAGTACATCACCCCGCACCTGTTCAAGGCGTTCCAGAACCTGCATCCGGAA 
GTCAGCCTGAGCCTGACGGTGGTCAACCGCACCCAGGTGATCAAGCGCTTGGCCGACAACCGCGACGACCTG 
GTGATCATGTCCCTGGTACCGCAGGACATGGCCCTGGAGTTCCTGCCCTTCCTGAACAACCCGATCATCGCC 
GTGGCGCCGCCGGACCATCCGCTGTGCAACGCCGCGAAGCTGGCCCTGAAGGACCTGGAGCCCTTCCCGCTA 
CTGGTCCGCGAACCGGGCTCGGGCACCCGCAAGGCTTGCGAGGAGTTCTTCCAGCAACGCCGCGCGCACTTC 
TCGCAGATCCAGGAGATCGCCTCGCTGGAGTCCCTGCGCGAAGGGGTGATCACCGGCCTCGGCCTGGCCCTG 
CTGCCGCGCCATGCGGCGCACCAGGAACTGGCCAACGGCCTGCTGCGCGAACTACCGGTGGAGGAATTGCCG 
CTCTATCGCAGCTGGTGCCTGGTGCACGCCAAGGGCAAGCGCCTGAGCCCGGTGGCCCAGGCGTTCGTCGCC 
TTCGTCCGCGAGGAGCGGGCGCTGATCAGCCAGCTCGCTGGGCGCTTCGCCGGCCCTGGCGGTTCGAGCTGA