ViewGene
Locus Name:
GeneID:
Location:

GeneID:2414
TrivialName: PA14_18200
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_18200
PAO1 Ortholog Locus:PA3565
Sequence Length:921
Protein Length:306
Start: 1560404
Stop: 1561324
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06953.1|AE004777_6 (AE004777) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 305/306 (99%), Positives = 305/306 (99%)
Sequence:
ATGCTGCGTTACGACGACCTCCAGGTGTTCGTCCACACCAGCGACAGCGGCTCGTTGTCCGCCGCCGCGCGC
CAGTTGGAGATTTCCCCGGCGGTGGCCAGCGCGGCGCTGAAGCGCCTGGAAAGCGAGCTGGAGGTACGCCTG
TTCGCCCGCTCCACCCGCAGCCTGCGCCTGACTCCCGAGGGCGACGCGTTCCTCCAGCATGCCCGCGCCTCG
TTGCGCAGCCTGGAGGAGGGGCGCCGGTTGCTGCAGGGCGGCAAGGACCAGATCGCCGGGGTGCTGCAGCTT
TCCGCGCCCTCCGACTTCGGCCGCAATCTGCTGCTGCCCTGGCTCGACGAGTTCCAGGCGCGCTATCCGCAA
CTGAGCCTGCGCCTGCTGCTCGGCGACCGGGTGACCGATCTCTACCGGCAACCGGTGGACGTGGCGATCCGC
TACGGCGCACCGGCCGACTCCAGCCTGGTCGCCCTGCCGCTGGCGCCGGACAACCGGCGAGTGCTCTGCGCC
GCGCCGGGCTACCTGGCGGAGCGCGGCGAGCCGCGCCAGCCGGACGACCTGCGCGAGCACAATTGCCTGCTC
TACCAACTCGGCGGCCGGGTACACGACCGCTGGGCGTTCCAGCGGGGCCGCCGCAGCCTGACCCTGACGGTC
GCCGGCGACCGGGTCTGCGACGACGCCGACGTGGTGCGGCGCTGGGCCCTGGCCGGCAAGGGACTGGTCTAC
AAGTCCTGGCTGGACGTGGCCGAGGACGTGCGCGCCGGGCGCCTGCGCCTGCTGCTGCCGGAGTGGCAGGGC
GAAGCGACGCCGATGAACCTCTTGTGTACCCACCGCGCCCAGTTGACCCGCCCGGTGACCCTCTTGCGCGCG
TTCGTGCGCGAGCGTTGCGACGCATTGCTGGCGGAGGCTCCATGGACGAGGAACTGA
Translation:
MLRYDDLQVFVHTSDSGSLSAAARQLEISPAVASAALKRLESELEVRLFARSTRSLRLTPEGDAFLQHARAS
LRSLEEGRRLLQGGKDQIAGVLQLSAPSDFGRNLLLPWLDEFQARYPQLSLRLLLGDRVTDLYRQPVDVAIR
YGAPADSSLVALPLAPDNRRVLCAAPGYLAERGEPRQPDDLREHNCLLYQLGGRVHDRWAFQRGRRSLTLTV
AGDRVCDDADVVRRWALAGKGLVYKSWLDVAEDVRAGRLRLLLPEWQGEATPMNLLCTHRAQLTRPVTLLRA
FVRERCDALLAEAPWTRN*
AnnotationID:2422GeneID:2414
AnnotatorUID: diggins
Modification Date/Time: 2005-04-20 06:06:51
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator, LysR family
Cell Localization:()
Synonyms:PA3565
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|AAO54297.1| (AE016858) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 307

 Score =  416 bits (1068), Expect = e-115
 Identities = 200/294 (68%), Positives = 244/294 (82%)

>gb|AAN53485.1|AE015488_7 (AE015488) transcriptional regulator, LysR family [Shewanella
           oneidensis MR-1]
          Length = 309

 Score =  300 bits (767), Expect = 9e-81
 Identities = 148/293 (50%), Positives = 204/293 (69%), Gaps = 1/293 (0%)






 
Structural Features:
COG0583, LysR, Transcriptional regulator [Transcription] 
CD-Length = 297 residues, 100.0% aligned
Score =  119 bits (298), Expect = 4e-28
Identities = 94/306 (30%), Positives = 141/306 (46%), Gaps = 16/306 (5%)

pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues, 100.0% aligned
Score = 98.9 bits (246), Expect = 6e-22
Identities = 61/212 (28%), Positives = 88/212 (41%), Gaps = 6/212 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4831




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21977




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31978




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Blast (text/plain)







    
Data:2414_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2414
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4065
                           PA3565_tr
                           translation of PA3565
                           306
                           99.67
                           99.67
                           0
                           1565.0
     

     
     
121971
                           gb|AAG06953.1|AE004777_6
                           (AE004777) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           306
                           99.67
                           99.67
                           0
                           1565.0
     

     
     
121972
                           gb|AAO54297.1|
                           (AE016858) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           315
                           64.12
                           78.09
                           17
                           1061.0
     

     
     
121973
                           gb|AAQ59307.1|
                           (AE016915) probable transcriptional regulator, LysR family [Chromobacterium violaceum ATCC 12472]
                           309
                           55.66
                           69.90
                           8
                           852.0
     

     
     
121974
                           gb|AAM43433.1|
                           (AE012548) transcriptional regulator [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           307
                           54.72
                           69.05
                           2
                           832.0
     

     






      

          
GC ORFID: 45416How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3565Glimmer Score: 

          
Start: 3393532Stop: 3392612

          
Length: 921


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3565 translation of PA3565Homolog Bit Score 607.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3495 (ORF: BLASTX 411.0), psyr_15may02_Scaffold10_revised_gene1650 (ORF: BLASTX 283.0), t_PA3565 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCTGCGTTACGACGACCTCCAGGTGTTCGTCCACACCAGCGACAGCGGCTCGTTGTCCGCCGCCGCGCGC 
CAGTTGGAGATTTCCCCGGCGGTGGCCAGCGCGGCGCTGAAGCGCCTGGAAAGCGAGCTGGAGGTACGCCTG 
TTCGCCCGCTCCACCCGCAGCCTGCGCCTGACTCCCGAGGGCGACGCGTTCCTCCAGCATGCCCGCGCCTCG 
TTGCGCAGCCTGGAGGAGGGGCGCCGGTTGCTGCAGGGCGGCAAGGACCAGATCGCCGGGGTGCTGCAGCTT 
TCCGCGCCCTCCGACTTCGGCCGCAATCTGCTGCTGCCCTGGCTCGACGAGTTCCAGGCGCGCTATCCGCAA 
CTGAGCCTGCGCCTGCTGCTCGGCGACCGGGTGACCGATCTCTACCGGCAACCGGTGGACGTGGCGATCCGC 
TACGGCGCACCGGCCGACTCCAGCCTGGTCGCCCTGCCGCTGGCGCCGGACAACCGGCGAGTGCTCTGCGCC 
GCGCCGGGCTACCTGGCGGAGCGCGGCGAGCCGCGCCAGCCGGACGACCTGCGCGAGCACAATTGCCTGCTC 
TACCAACTCGGCGGCCGGGTACACGACCGCTGGGCGTTCCAGCGGGGCCGCCGCAGCCTGACCCTGACGGTC 
GCCGGCGACCGGGTCTGCGACGACGCCGACGTGGTGCGGCGCTGGGCCCTGGCCGGCAAGGGACTGGTCTAC 
AAGTCCTGGCTGGACGTGGCCGAGGACGTGCGCGCCGGGCGCCTGCGCCTGCTGCTGCCGGAGTGGCAGGGC 
GAAGCGACGCCGATGAACCTCTTGTGTACCCACCGCGCCCAGTTGACCCGCCCGGTGACCCTCTTGCGCGCG 
TTCGTGCGCGAGCGTTGCGACGCATTGCTGGCGGAGGCTCCATGGACGAGGAACTGA