ViewGene
Locus Name:
GeneID:
Location:

GeneID:2623
TrivialName: PA14_23730
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23730
PAO1 Ortholog Locus:PA3122
Sequence Length:894
Protein Length:297
Start: 2063409
Stop: 2062516
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06510.1|AE004736_7 (AE004736) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 297/297 (100%), Positives = 297/297 (100%)
Sequence:
ATGGACCTGAACAGCCTCAACACCTTCATCGCCATTGCCGAGACCGGCAGCTTCTCCGAGGCCGGCGAGCGC
CTGCACCTGACCCAACCGGCGGTGAGCAAGCGCATCGCCGCCCTCGAACAGCAGCTCAATGCCCGGCTGTTC
GACCGGGTCGGCCGCGAGGTCAACCTCACCGAGGCCGGCCGCGCCCTGCTGCCGCGCGCCTATCAGTTGCTC
AACGTGCTCGACGACACCCGCCGGGCGCTGAACAACCTCACCGGCGAGGTCAGCGGCCGGCTGGTCCTGGCC
ACCAGCCACCACATCGGCCTGCATCGCCTGCCGCCGCTGCTGCGCGCCTTCACCCGGGCGCATCCGCAGGTG
GCGCTGGATATCCAGTTCCTGGATTCGGAAGTGGCCTACGAGGAGATCCTTCATGGCCGTGCGGAACTGGCG
GTGATCACCCTGGCCCCGGAAACCGCCGAACCGGTGCGCGCAGTCCCGGTGTGGGACGACCCGCTGGACTTC
GTCGCCGCCCCGGAGCACCCGCTGGCCCGACAGGGCACGGTGTTCCTCGCCGACGTCGCCAAGCACCCCGCG
GTATTCCCCGGCGGCAACACCTTCACCCACCACATCGTGCGGCGCATGTTCGAAGCCGAAGGGCTGACGCCG
AACATCGCCATGAGCACCAACTACCTGGAGACCATCAAGATGATGGTCTCCATCGGCCTGGCCTGGAGCGTG
CTGCCGCGGACCATGCTCGACGACCAGGTGGTGCGCCTGCCGCTACAGGACATCCAGCTCAGCCGCCAGCTC
GGCTACATCCTGCACACCGAGCGGACCCTGTCGAACGCCGCGCGCGCCTTCATGCGCCTGCTCGACGAACAG
GCATTCGGCAACGGCACTCCAGCGGCCTGA
Translation:
MDLNSLNTFIAIAETGSFSEAGERLHLTQPAVSKRIAALEQQLNARLFDRVGREVNLTEAGRALLPRAYQLL
NVLDDTRRALNNLTGEVSGRLVLATSHHIGLHRLPPLLRAFTRAHPQVALDIQFLDSEVAYEEILHGRAELA
VITLAPETAEPVRAVPVWDDPLDFVAAPEHPLARQGTVFLADVAKHPAVFPGGNTFTHHIVRRMFEAEGLTP
NIAMSTNYLETIKMMVSIGLAWSVLPRTMLDDQVVRLPLQDIQLSRQLGYILHTERTLSNAARAFMRLLDEQ
AFGNGTPAA*
AnnotationID:2631GeneID:2623
AnnotatorUID: diggins
Modification Date/Time: 2005-04-13 07:07:03
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator lysR family
Cell Localization:()
Synonyms:PA3122
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam03466,COG0583
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55689.1| (AE016863) transcriptional regulator, LysR family [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 290

 Score =  477 bits (1227), Expect = e-134
 Identities = 239/288 (82%), Positives = 262/288 (90%)

>gb|AAN67599.1|AE016389_7 (AE016781) transcriptional regulator, LysR family [Pseudomonas
           putida KT2440]
          Length = 292

 Score =  466 bits (1198), Expect = e-131
 Identities = 236/289 (81%), Positives = 257/289 (88%)

>gb|AAM38302.1| (AE011993) transcriptional regulator lysR family [Xanthomonas
           axonopodis pv. citri str. 306]
          Length = 294

 Score =  368 bits (945), Expect = e-101
 Identities = 189/289 (65%), Positives = 218/289 (75%)






 
Structural Features:
pfam03466, LysR_substrate, LysR substrate binding domain.
CD-Length = 209 residues,  99.0% aligned
Score =  130 bits (329), Expect = 1e-31
Identities = 68/208 (32%), Positives = 102/208 (49%), Gaps = 6/208 (2%)
 
COG0583, LysR, Transcriptional regulator [Transcription]
CD-Length = 297 residues,  98.0% aligned
Score =  152 bits (385), Expect = 4e-38
Identities = 97/295 (32%), Positives = 142/295 (48%), Gaps = 10/295 (3%)







   
Genomic Context:






   
Comment:


















    ReferenceID:5249




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22394




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32402




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2623_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2623
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4337
                           PA3122_tr
                           translation of PA3122
                           297
                           99.99
                           99.99
                           0
                           1502.0
     

     
     
127001
                           gb|AAG06510.1|AE004736_7
                           (AE004736) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           297
                           99.99
                           99.99
                           0
                           1502.0
     

     
     
127002
                           gb|AAO55689.1|
                           (AE016863) transcriptional regulator, LysR family [Pseudomonas syringae pv. tomato str. DC3000]
                           297
                           80.47
                           88.21
                           7
                           1224.0
     

     
     
127003
                           gb|AAN67599.1|AE016389_7
                           (AE016781) transcriptional regulator, LysR family [Pseudomonas putida KT2440]
                           297
                           79.46
                           86.53
                           5
                           1193.0
     

     
     
127004
                           gb|AAM38302.1|
                           (AE011993) transcriptional regulator lysR family [Xanthomonas axonopodis pv. citri str. 306]
                           299
                           63.54
                           73.24
                           7
                           935.0
     

     






      

          
GC ORFID: 45625How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3122Glimmer Score: 

          
Start: 2890522Stop: 2891415

          
Length: 894


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3122 translation of PA3122Homolog Bit Score 583.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene452 (ORF: BLASTX 478.0), t_PA3122 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGACCTGAACAGCCTCAACACCTTCATCGCCATTGCCGAGACCGGCAGCTTCTCCGAGGCCGGCGAGCGC 
CTGCACCTGACCCAACCGGCGGTGAGCAAGCGCATCGCCGCCCTCGAACAGCAGCTCAATGCCCGGCTGTTC 
GACCGGGTCGGCCGCGAGGTCAACCTCACCGAGGCCGGCCGCGCCCTGCTGCCGCGCGCCTATCAGTTGCTC 
AACGTGCTCGACGACACCCGCCGGGCGCTGAACAACCTCACCGGCGAGGTCAGCGGCCGGCTGGTCCTGGCC 
ACCAGCCACCACATCGGCCTGCATCGCCTGCCGCCGCTGCTGCGCGCCTTCACCCGGGCGCATCCGCAGGTG 
GCGCTGGATATCCAGTTCCTGGATTCGGAAGTGGCCTACGAGGAGATCCTTCATGGCCGTGCGGAACTGGCG 
GTGATCACCCTGGCCCCGGAAACCGCCGAACCGGTGCGCGCAGTCCCGGTGTGGGACGACCCGCTGGACTTC 
GTCGCCGCCCCGGAGCACCCGCTGGCCCGACAGGGCACGGTGTTCCTCGCCGACGTCGCCAAGCACCCCGCG 
GTATTCCCCGGCGGCAACACCTTCACCCACCACATCGTGCGGCGCATGTTCGAAGCCGAAGGGCTGACGCCG 
AACATCGCCATGAGCACCAACTACCTGGAGACCATCAAGATGATGGTCTCCATCGGCCTGGCCTGGAGCGTG 
CTGCCGCGGACCATGCTCGACGACCAGGTGGTGCGCCTGCCGCTACAGGACATCCAGCTCAGCCGCCAGCTC 
GGCTACATCCTGCACACCGAGCGGACCCTGTCGAACGCCGCGCGCGCCTTCATGCGCCTGCTCGACGAACAG 
GCATTCGGCAACGGCACTCCAGCGGCCTGA