ViewGene
Locus Name:
GeneID:
Location:

GeneID:3475
TrivialName: PA14_59770
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_59770
PAO1 Ortholog Locus:
Sequence Length:696
Protein Length:231
Start: 5320295
Stop: 5319600
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAP84166.1| (AY273869) RcsB [Pseudomonas aeruginosa]
Identities = 231/231 (100%), Positives = 231/231 (100%)
Sequence:
ATGCGTCCGGGGTCAATAGTTGGAATTAGAACACAAGAGAAGCCTATGAGTAAGCTCAAGATAGTACTGGCC
GATGACCATCCGATCGTGCGTATGGGCGTATGCGACATGCTCGAGCGCGACGGTCGGTTCGAGGTGGTGGGC
GAGGCCTCCACGCCCAGCGAACTGGTCGAGGTGTGCCGGCAGAGCGAGCCGCATATCGCCATTACCGACTAC
AGCATGCCCGGGGACGAGCGCTACGGCGATGGACTGAAACTGATCGACTACCTGTTGCGCAACTTTCCTCGT
ACTAAGGTGCTCATCTTCACCATGGTCGGCAACCGCCTGATCCTCGACAGCCTCTACGATCACGGGGTGTCC
GGCGTGGTGCTGAAGAGCGGCGAACTCGACGAGCTGCTCTTGGCGCTCGACGTGGTGAAGCAGAACCGCGTC
TACCGGGGCGCGAACATGCTCGACCCGACCAGTGTTCTGGCGAACCGCGACGAAGTGGAAAGCCGCTTCGCG
CGCTTGTCGATGAAGGAGTTCGAAGTACTCCGTCACTTCGTTTCCGGCAGCAACGTCTGCGATATCGCACGG
CTGCTGAAACGTAGCGTCAAGACCGTAAGCACGCAGAAGGTCTCGGCGATGCGCAAGCTGGAAGTGAACAGC
GACCAGGCCTTGATGACCTTCTGCGTGCATGCCAACTTGTTCCATTGA
Translation:
MRPGSIVGIRTQEKPMSKLKIVLADDHPIVRMGVCDMLERDGRFEVVGEASTPSELVEVCRQSEPHIAITDY
SMPGDERYGDGLKLIDYLLRNFPRTKVLIFTMVGNRLILDSLYDHGVSGVVLKSGELDELLLALDVVKQNRV
YRGANMLDPTSVLANRDEVESRFARLSMKEFEVLRHFVSGSNVCDIARLLKRSVKTVSTQKVSAMRKLEVNS
DQALMTFCVHANLFH*
AnnotationID:3483GeneID:3475
AnnotatorUID: diggins
Modification Date/Time: 2006-02-02 07:07:51
Gene Name:rcsB
Confidence Code:2
GeneProduct:putative two component response regulator
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2197
Secondary Functional Category(ies):signal transduction mechanisms
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAG57352.1|AE005453_9 (AE005453) positive response regulator for colanic capsule
           biosynthesis, (sensor, RcsC) [Escherichia coli O157:H7
           EDL933]
          Length = 216

 Score =  141 bits (355), Expect = 3e-33
 Identities = 83/211 (39%), Positives = 124/211 (58%), Gaps = 10/211 (4%)

>gb|AAO68300.1| (AE016836) regulator of capsule synthesis B component [Salmonella
           enterica subsp. enterica serovar Typhi Ty2]
          Length = 216

 Score =  140 bits (354), Expect = 5e-33
 Identities = 84/211 (39%), Positives = 124/211 (58%), Gaps = 10/211 (4%)

>emb|CAA61094.1| (X87830) RcsB protein [Salmonella typhi]
          Length = 216

 Score =  140 bits (354), Expect = 5e-33
 Identities = 84/211 (39%), Positives = 124/211 (58%), Gaps = 10/211 (4%)






 
Structural Features:
COG2197, CitB, Response regulator containing a CheY-like receiver domain 
and an HTH DNA-binding domain 
[Signal transduction mechanisms / Transcription].
CD-Length = 211 residues,  95.7% aligned
Score =  142 bits (359), Expect = 4e-35
Identities = 64/205 (31%), Positives = 99/205 (48%), Gaps = 5/205 (2%)






   
Genomic Context:






   
Comment:
the ORF has been reported to be related to pathogensis.



















    ReferenceID:6953




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17089




  
Author/Investigator(s):
        





  
Title:
        CDD-search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:NCBI CD-3475.htm


    		




 
URL:

















    ReferenceID:24095




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:38314




  
Author/Investigator(s):
        Stout V, Gottesman S.





  
Title:
        RcsB and RcsC: a two-component regulator of capsule synthesis in Escherichia coli.




  
PubMed:
        2404948


MedLine:
        




    
Source:
J Bacteriol. 1990 Feb;172(2):659-69.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.gov/articlerender.fcgi?tool=pubmed&pubmedid=2404948









           
Homologs By Global Alignment 

           

       



     
Gene ID:3475
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
154290
                           gb|AAP84166.1|
                           (AY273869) RcsB [Pseudomonas aeruginosa]
                           231
                           99.99
                           99.99
                           0
                           1169.0
     

     
     
154291
                           gb|AAM86521.1|AE013898_4
                           (AE013898) positive response regulator for colanic capsule biosynthesis [Yersinia pestis KIM]
                           239
                           36.40
                           52.30
                           30
                           359.0
     

     
     
154292
                           emb|CAC90056.1|
                           (AJ414147) probable two component response regulator component B [Yersinia pestis CO92]
                           239
                           36.40
                           52.30
                           30
                           359.0
     

     
     
154293
                           emb|CAE15422.1|
                           (BX571869) capsular synthesis regulator component B [Photorhabdus luminescens subsp. laumondii TTO1]
                           246
                           34.95
                           51.62
                           44
                           348.0
     

     






      

          
GC ORFID: 46477How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_RL039Glimmer Score: 

          
Start: 4583974Stop: 4583279

          
Length: 696


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_RL039 rcsB 231 Homolog: Z3476 / Pathogenicity-related protein; a regulatory of two component system / E.coli O157:H7 / EDL933 / (AAG57352) translation of RL039Homolog Bit Score 454.0

          
Other Homologs:  t_RL039 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGTCCGGGGTCAATAGTTGGAATTAGAACACAAGAGAAGCCTATGAGTAAGCTCAAGATAGTACTGGCC 
GATGACCATCCGATCGTGCGTATGGGCGTATGCGACATGCTCGAGCGCGACGGTCGGTTCGAGGTGGTGGGC 
GAGGCCTCCACGCCCAGCGAACTGGTCGAGGTGTGCCGGCAGAGCGAGCCGCATATCGCCATTACCGACTAC 
AGCATGCCCGGGGACGAGCGCTACGGCGATGGACTGAAACTGATCGACTACCTGTTGCGCAACTTTCCTCGT 
ACTAAGGTGCTCATCTTCACCATGGTCGGCAACCGCCTGATCCTCGACAGCCTCTACGATCACGGGGTGTCC 
GGCGTGGTGCTGAAGAGCGGCGAACTCGACGAGCTGCTCTTGGCGCTCGACGTGGTGAAGCAGAACCGCGTC 
TACCGGGGCGCGAACATGCTCGACCCGACCAGTGTTCTGGCGAACCGCGACGAAGTGGAAAGCCGCTTCGCG 
CGCTTGTCGATGAAGGAGTTCGAAGTACTCCGTCACTTCGTTTCCGGCAGCAACGTCTGCGATATCGCACGG 
CTGCTGAAACGTAGCGTCAAGACCGTAAGCACGCAGAAGGTCTCGGCGATGCGCAAGCTGGAAGTGAACAGC 
GACCAGGCCTTGATGACCTTCTGCGTGCATGCCAACTTGTTCCATTGA