ViewGene
Locus Name:
GeneID:
Location:

GeneID:2896
TrivialName: PA14_01930
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_01930
PAO1 Ortholog Locus:PA0155
Sequence Length:840
Protein Length:279
Start: 175175
Stop: 176014
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03545.1|AE004453_8 (AE004453) transcriptional regulator PcaR [Pseudomonas aeruginosa PAO1]
Identities = 277/279 (99%), Positives = 278/279 (99%)
Sequence:
ATGAGCGAACTCCCGGAACACTCCGCCACCCTGGCGCCGCCGACCGTCCTTTCGCCAGCCAAGCGCATCAAG
GCCTTCACCGGCGATCCCAACTTCATGACCTCGCTGGCCCGTGGCCTGGCGGTGATCCATGCGTTCCAGGAG
CGCAAGCGGCACCTGACCATCGCCCAGATCAGCCACCGCACAGAGATACCCCGCGCCGCCGTGCGTCGCTGC
CTGCACACGCTGATGCAGCTTGGCTACGCCACCACCGACGGGCGCACCTACTCGCTGTTGCCGAAGGTGCTC
ACCCTCGGTCACGCCTACCTGTCGTCGACGCCGCTGGCGATCACTGCGCAGCCGATCCTCGACCGCCTCAGC
GAACAGCTCCACGAAGCCTGTTCGATGGCCACCCTGGAGGGCGACGACGTGCTCTACATCGCCCGTTCGGCC
ACTCCCCAGCGGCTGATTTCGGTGGACCTCAACGTCGGCAGCCGGCTGCCCGCCTATTGCACCTCGATGGGC
CGCATTCTCCTCGCCGCGCTGGACGACGACGCGCTGCACGCCTACTTCGGCGGAGTGGAGATGCAGGCCAAG
ACCAGCCGTACCCTGTATACCCCCGAGACCCTGCTGCCGTGCCTGGTGGAGATTCGTCGCCAGGGCTGGTGC
ATCGTCGACCAGGAGCTGGAAGTCGGCCTGCGCTCGCTGGCGGTGCCGGTACGCGACTCCGCCGGCCATGTG
CTCGCCGCGCTGAACGTCGGCACCCATGCCGGGCGGGTCTCCCGCGCCGAACTGGAAAGTCGCTTCCTGCCG
TTGCTGCTGGAGGCCAGCCGCGAGCTGAGCGCGCGCCTGTTCACCTGA
Translation:
MSELPEHSATLAPPTVLSPAKRIKAFTGDPNFMTSLARGLAVIHAFQERKRHLTIAQISHRTEIPRAAVRRC
LHTLMQLGYATTDGRTYSLLPKVLTLGHAYLSSTPLAITAQPILDRLSEQLHEACSMATLEGDDVLYIARSA
TPQRLISVDLNVGSRLPAYCTSMGRILLAALDDDALHAYFGGVEMQAKTSRTLYTPETLLPCLVEIRRQGWC
IVDQELEVGLRSLAVPVRDSAGHVLAALNVGTHAGRVSRAELESRFLPLLLEASRELSARLFT*
AnnotationID:2904GeneID:2896
AnnotatorUID: diggins
Modification Date/Time: 2005-03-23 06:06:12
Gene Name:pcaR
Confidence Code:2
GeneProduct:transcriptional regulator PcaR
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1414,pfam01614
Secondary Functional Category(ies):carbon compond metabolism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57761.1| (AE016871) Pca regulon regulatory protein PcaR [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 280

 Score =  430 bits (1105), Expect = e-120
 Identities = 217/277 (78%), Positives = 246/277 (88%)

>gb|AAN66998.1|AE016328_3 (AE016779) pca regulon regulatory protein [Pseudomonas putida
           KT2440]
          Length = 291

 Score =  421 bits (1083), Expect = e-117
 Identities = 210/271 (77%), Positives = 241/271 (88%)








 
Structural Features:
COG1414, IclR, Transcriptional regulator [Transcription]
CD-Length = 246 residues,  99.2% aligned
Score =  199 bits (508), Expect = 2e-52
Identities = 96/246 (39%), Positives = 143/246 (58%), Gaps = 4/246 (1%)

pfam01614, IclR, Bacterial transcriptional regulator. 
CD-Length = 188 residues, 100.0% aligned
Score =  181 bits (460), Expect = 9e-47
Identities = 76/188 (40%), Positives = 114/188 (60%)






   
Genomic Context:






   
Comment:


















    ReferenceID:5795




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22937




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33527




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2896_cdd.html


    		




 
URL:

















    ReferenceID:35489




  
Author/Investigator(s):
        Harwood CS, Nichols NN, Kim MK, Ditty JL, Parales RE.





  
Title:
        Identification of the pcaRKF gene cluster from Pseudomonas putida: involvement in chemotaxis, biodegradation, and transport of 4-hydroxybenzoate.




  
PubMed:
        7961399


MedLine:
        




    
Source:
J Bacteriol. 1994 Nov;176(21):6479-88.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7961399

















    ReferenceID:35490




  
Author/Investigator(s):
        Romero-Steiner S, Parales RE, Harwood CS, Houghton JE.





  
Title:
        Characterization of the pcaR regulatory gene from Pseudomonas putida, which is required for the complete degradation of p-hydroxybenzoate.




  
PubMed:
        8083169


MedLine:
        




    
Source:
J Bacteriol. 1994 Sep;176(18):5771-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8083169









           
Homologs By Global Alignment 

           

       



     
Gene ID:2896
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4691
                           PA0155_tr
                           translation of PA0155
                           279
                           99.28
                           99.64
                           0
                           1397.0
     

     
     
135039
                           gb|AAG03545.1|AE004453_8
                           (AE004453) transcriptional regulator PcaR [Pseudomonas aeruginosa PAO1]
                           279
                           99.28
                           99.64
                           0
                           1397.0
     

     
     
135040
                           gb|AAO57761.1|
                           (AE016871) Pca regulon regulatory protein PcaR [Pseudomonas syringae pv. tomato str. DC3000]
                           280
                           77.50
                           87.85
                           1
                           1103.0
     

     
     
135042
                           gb|AAN66998.1|AE016328_3
                           (AE016779) pca regulon regulatory protein [Pseudomonas putida KT2440]
                           291
                           72.50
                           83.84
                           12
                           1073.0
     

     
     
135043
                           emb|CAB64601.1|
                           (AJ252090) PcaR protein [Pseudomonas putida]
                           291
                           72.16
                           83.16
                           12
                           1064.0
     

     






      

          
GC ORFID: 45898How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0155Glimmer Score: 

          
Start: 5976514Stop: 5977353

          
Length: 840


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0155 translation of PA0155Homolog Bit Score 542.0

          
Other Homologs:  psyr_15may02_Scaffold5_revised_gene6190 (ORF: BLASTX 437.0), t_PA0155 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCGAACTCCCGGAACACTCCGCCACCCTGGCGCCGCCGACCGTCCTTTCGCCAGCCAAGCGCATCAAG 
GCCTTCACCGGCGATCCCAACTTCATGACCTCGCTGGCCCGTGGCCTGGCGGTGATCCATGCGTTCCAGGAG 
CGCAAGCGGCACCTGACCATCGCCCAGATCAGCCACCGCACAGAGATACCCCGCGCCGCCGTGCGTCGCTGC 
CTGCACACGCTGATGCAGCTTGGCTACGCCACCACCGACGGGCGCACCTACTCGCTGTTGCCGAAGGTGCTC 
ACCCTCGGTCACGCCTACCTGTCGTCGACGCCGCTGGCGATCACTGCGCAGCCGATCCTCGACCGCCTCAGC 
GAACAGCTCCACGAAGCCTGTTCGATGGCCACCCTGGAGGGCGACGACGTGCTCTACATCGCCCGTTCGGCC 
ACTCCCCAGCGGCTGATTTCGGTGGACCTCAACGTCGGCAGCCGGCTGCCCGCCTATTGCACCTCGATGGGC 
CGCATTCTCCTCGCCGCGCTGGACGACGACGCGCTGCACGCCTACTTCGGCGGAGTGGAGATGCAGGCCAAG 
ACCAGCCGTACCCTGTATACCCCCGAGACCCTGCTGCCGTGCCTGGTGGAGATTCGTCGCCAGGGCTGGTGC 
ATCGTCGACCAGGAGCTGGAAGTCGGCCTGCGCTCGCTGGCGGTGCCGGTACGCGACTCCGCCGGCCATGTG 
CTCGCCGCGCTGAACGTCGGCACCCATGCCGGGCGGGTCTCCCGCGCCGAACTGGAAAGTCGCTTCCTGCCG 
TTGCTGCTGGAGGCCAGCCGCGAGCTGAGCGCGCGCCTGTTCACCTGA