ViewGene
Locus Name:
GeneID:
Location:

GeneID:49
TrivialName: PA14_59780
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_59780
PAO1 Ortholog Locus:
Sequence Length:3255
Protein Length:1084
Start: 5323549
Stop: 5320295
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAP84165.1| (AY273869) RcsC [Pseudomonas aeruginosa]
Identities = 1083/1084 (99%), Positives = 1083/1084 (99%)
Sequence:
GTGAAGTCTGCTAGTGCCTTGGAGCACGACAACAAACTTTTGCTCAAATGGACAACCCTCTCGCAGAGCCTG
AGCATCGGCTTGATCTGTGTGGTGGTGCTGACCGTATTGCTGTTCAGCATCTGTTACTGGTCGCTGGGGAGA
TTGTTTCAGGAGGAGGAGGACAAAGTCTCCTTCCACTTCACCCGTATGATGGATGTTATACGGGAGCATGAG
GTATTTCTTGGGCGCATCGCTCGAAAAAGCGACAAGACCACCCAGAAGTACGACTATGACGTGGTGCCTTTG
CAGCGGCACTTGTTGGCAAAGGAAAACGGATTAGCGGTCTATGAGGGACGGGAGTTTTCCTTTGCTATGCCA
TTTCTACTGGCTACCAAGCACGCGTTGAGCGCCGATTCCTCGGGAGATCCGTTTTCGCTCGGTGTATTGCTC
GCCAATTTCTACGGAAGCTTCTGGAGTGTTTCCGCCTATCCCGCGCCACAGTTACTGATCTTTGATCTTTCC
GGCAGCACCCGCCTGGCAGTGCCGTCGATTCCCTCCACAGCGCAGCGTGACAGGTTGAGCGGAAGCTATCCG
ATGATAGTCGAGCGCATTCTGGCGCGCTTGCGCACCCGGCCGGTGGGGGAGGACGCTCAGCGTGTCCATTGG
ATACGCGCTGATCGCTATCGCGACTCGGCGCTGGAGATGTTGGGAGTCGCCCGGGTTGATCTGCCGGAAACA
CTCTGGTGGCACGACGAGCCGAACCATCTGATCATCGCTGCGAGCCTGCTTGATCTCAGGCGAATCAATGAC
TTCGAACAGTTGGTTGAGCGCCCGGCATTCGATTCGTACAGCCTGGTATCGCCGGATGGCGAGGTATTGCTC
GGCGCGGCCCCTGCGACCGGCCTGAGGGATGGCCTGAACCTCACCCGACAGGGGGTCGCCGTTCAACTGCGC
AGCCAGCCTGAGAACGGCTGGCTCGCGGTCTACCGAACCGACTACGGCAATTTCTTTCGCCACTCCCGGTGG
CTGGTGGCAGGTCTGCTGCTGACCCCGGCGCTGCTCCTGGCCGGTTGGCTCGGGATGCGTTGGTACACCAGC
AGCGTCGTCAACCCGGTGCATCGGGCGCACCGGCAACTGGTGGAGAGCGACACCTTCAGCCGGACGCTGATA
CAGACCGCGCCGGTGGCTCTGGTGGTGCTGACCCAGGATGACCAGCAACTGGTGACCTGCAACCACTTGGCC
GCCCAGTGGCTGGGCGGGCCCACGGAGATCCTTGGGCTGACTTCCAACTGGAAGCTTTTCGATGCGCGTGGG
CAGGTACCAGGAGACATCTGTATCCAGGTCGGTGGGCGCTATTTGCAGACCGCCTTCGCGGCGACCCGCTAT
GCCGGCACCGAGGCGGTACTGTGCGTATTCAACGACATCACGGTCCACTGCGAGGCGGAGACCGCGCTGTCC
AATGCGAAGCGAGCAGCGGATGCCGCCAGCCAGGCCAAGACCCTGTTCCTGGCCCGCATGAGCCATGAAATC
CGTACTCCCCTGTACGGTGTCCTTGGCACCCTGGAGTTGCTCGACCTGACCACCCTGAACGAGCGGCAACGC
GCCTACCTACGCACCATCCAGAGTTCGTCTGCGACGCTCATGCAACTGATTAGCGATGTGCTGGATGTCTCG
AAGATCGAAGCGGGGCAGATGGCTCTGACCCTGGCCGCCTTCAATCCGCTGGACCTAGTGCGGGAAGTGCTT
GGCAACTTTGCCGCCAGCGCCATGGCCAAGGACCTGCAGTTCTATGCCTGCATCGACACCGAAGTGCCGGCG
CAACTGATCGGTGACGTGACGCGGATTCGCCAGGTGCTCAATAACTTGGTGAATAACGCGCTGAAGTTCACC
GATATCGGACGGGTGGTCCTGCGCGTGAAGTTGCTCTCCCGCAATGATGGTCGAGCCCTGTTGCAGTGGCAG
GTCGCCGACACCGGTATCGGTATCGCACACGAACAGCAGGAGCGCTTGTTCGAGGCGTTCTACCAGGTTTCG
GGAGCGCACCATGCCGGCGGCACGGGGCTAGGACTGTCGATCTGCTGGCATCTGGCGGAAATGATGGGCGGT
CACCTGCGAATGGTCAGCGAGACAGGGCTCGGCAGCAGCTTCAGCCTGGTGCTCGAGTTGCCCGAGGACGAA
CAGTCCGGGCTGGCTTGCCGGCCGGGGCTCTTGAAATCCGCTTGCGTCCATGTGCGCTCGCCCGTGCGGGAG
CTAGCCGACAGCGTAGGGGCGTGGCTGAAAGCCTGGGGCTGCAAGGTCAGCAGCGGCGAGGCGGCGCCCTCC
GAGCTGGAGACTTGTGTGCTTCTGGAGCTGCTGCCGATGGCGGCCGGGCCTGCTTCTTCGCCCTGGCCAGGC
CCCCGGGTGCGCGCGTCCATGGATGCGCCTTGCCAGCCGGAGCTGCGTGAGGACGGCTGGCGTGTCGGCCTG
CACAACCTGGCGGGAATCGGCCAGGCCCTGGCGCAGGCTCTGGGTGGCGATATCCCCGAGCAAACGCCGGCA
AATGCCTGCGCCCGCTCGGGGAGACTCGACCTGGAAGTGCTGGTCGCCGAGGACAACCCAGTCAACCAGGCG
CTGCTTCGCGAGCAACTGGAAGAGCTGGGTTGTCGCGTGAGCCTTGCCGGCGATGGGCGGCAGGCCCTGCAG
CTGTTCGACAGTGGTCGCTTCGACCTCCTGCTCAGCGACGTCAACATGCCGAACATGACCGGCTACGAACTG
ACCCAGGCGCTGCGCGAACGAGGCGAGACGCTGCCGATCATCGGCGTGACCGCCAACGCCCTGCGAGAAGAG
GGCGAGCGCTGCCGGGCAGTGGGAATGAACAGTTGGCTGGTGAAGCCGATCACTCTGCATACCTTGCATGAA
CTGCTCAGTGAGTTCGCTCGCGCAGGTGTCGTGCTTCCCGCGCAAGCGCGAGACCTCGGCCCGCCCGCGCAG
CTCGACGACGGTCTCTCACCGCAGGTGCCGGAACGCATGCGCGCGCTTTTCCTTGAGACCATGGGCAAGGAC
CTGGAGGCCGCCCGGCAAGCGATTCGCCGCAACGACCCGAAGGGGCTGCAGCAGGACCTGCATCGCATGGCC
GGCTCCCTGGCGGTGATGCGTGCGCGAACGCTGGTGGTGATGTGTCAGGGCGCCGAGGAAGGCCTGCTGGAG
TCGCGCCTTGAATGTTCCGCCGTGGAGATTGGCGAGGTGCTCGTTCATATCGAGCAGGCGCTGGAGTTTGTG
AGAAAGACGGGCTGA
Translation:
MKSASALEHDNKLLLKWTTLSQSLSIGLICVVVLTVLLFSICYWSLGRLFQEEEDKVSFHFTRMMDVIREHE
VFLGRIARKSDKTTQKYDYDVVPLQRHLLAKENGLAVYEGREFSFAMPFLLATKHALSADSSGDPFSLGVLL
ANFYGSFWSVSAYPAPQLLIFDLSGSTRLAVPSIPSTAQRDRLSGSYPMIVERILARLRTRPVGEDAQRVHW
IRADRYRDSALEMLGVARVDLPETLWWHDEPNHLIIAASLLDLRRINDFEQLVERPAFDSYSLVSPDGEVLL
GAAPATGLRDGLNLTRQGVAVQLRSQPENGWLAVYRTDYGNFFRHSRWLVAGLLLTPALLLAGWLGMRWYTS
SVVNPVHRAHRQLVESDTFSRTLIQTAPVALVVLTQDDQQLVTCNHLAAQWLGGPTEILGLTSNWKLFDARG
QVPGDICIQVGGRYLQTAFAATRYAGTEAVLCVFNDITVHCEAETALSNAKRAADAASQAKTLFLARMSHEI
RTPLYGVLGTLELLDLTTLNERQRAYLRTIQSSSATLMQLISDVLDVSKIEAGQMALTLAAFNPLDLVREVL
GNFAASAMAKDLQFYACIDTEVPAQLIGDVTRIRQVLNNLVNNALKFTDIGRVVLRVKLLSRNDGRALLQWQ
VADTGIGIAHEQQERLFEAFYQVSGAHHAGGTGLGLSICWHLAEMMGGHLRMVSETGLGSSFSLVLELPEDE
QSGLACRPGLLKSACVHVRSPVRELADSVGAWLKAWGCKVSSGEAAPSELETCVLLELLPMAAGPASSPWPG
PRVRASMDAPCQPELREDGWRVGLHNLAGIGQALAQALGGDIPEQTPANACARSGRLDLEVLVAEDNPVNQA
LLREQLEELGCRVSLAGDGRQALQLFDSGRFDLLLSDVNMPNMTGYELTQALRERGETLPIIGVTANALREE
GERCRAVGMNSWLVKPITLHTLHELLSEFARAGVVLPAQARDLGPPAQLDDGLSPQVPERMRALFLETMGKD
LEAARQAIRRNDPKGLQQDLHRMAGSLAVMRARTLVVMCQGAEEGLLESRLECSAVEIGEVLVHIEQALEFV
RKTG*
AnnotationID:59GeneID:49
AnnotatorUID: diggins
Modification Date/Time: 2006-01-23 06:06:40
Gene Name:rcsC
Confidence Code:2
GeneProduct:putative kinase sensor protein
Cell Localization:(4) Inner membrane protein
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0642,cd00156
Secondary Functional Category(ies):signal transduction mechanisms
EC Number:2.7.3.-
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAL21172.1| (AE008801) sensory histidine kinase in two-component regulatory
           system with RcsB [Salmonella typhimurium LT2]
          Length = 948

 Score =  318 bits (815), Expect = 1e-85
 Identities = 218/677 (32%), Positives = 343/677 (50%), Gaps = 48/677 (7%)

>dbj|BAB36530.1| (AP002560) sensor for ctr capsule biosynthesis [Escherichia coli
           O157:H7]
          Length = 933

 Score =  318 bits (814), Expect = 2e-85
 Identities = 225/680 (33%), Positives = 346/680 (50%), Gaps = 54/680 (7%)






 
Structural Features:
COG0642, BaeS, Signal transduction histidine kinase 
[Signal transduction mechanisms].
CD-Length = 336 residues, only  68.8% aligned
Score =  161 bits (407), Expect = 5e-40
Identities = 84/249 (33%), Positives = 136/249 (54%), Gaps = 11/249 (4%)

cd00156, REC, Signal receiver domain
CD-Length = 113 residues, 100.0% aligned
Score =  105 bits (264), Expect = 3e-23
Identities = 40/113 (35%), Positives = 61/113 (53%)






   
Genomic Context:






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



















    ReferenceID:14039




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17088




  
Author/Investigator(s):
        





  
Title:
        CDD-search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:NCBI CD-49.htm


    		




 
URL:

















    ReferenceID:17243




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:38265




  
Author/Investigator(s):
        Clarke DJ, Joyce SA, Toutain CM, Jacq A, Holland IB.





  
Title:
        Genetic analysis of the RcsC sensor kinase from Escherichia coli K-12.




  
PubMed:
        11807084


MedLine:
        




    
Source:
J Bacteriol. 2002 Feb;184(4):1204-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.gov/articlerender.fcgi?tool=pubmed&pubmedid=11807084

















    ReferenceID:38266




  
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:49
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
11690
                           gb|AAP84165.1|
                           (AY273869) RcsC [Pseudomonas aeruginosa]
                           1084
                           99.81
                           99.90
                           0
                           5541.0
     

     
     
11691
                           gb|AAM15534.1|AF482691_3
                           (AF482691) putative sensor kinase [Pseudomonas aeruginosa]
                           1110
                           49.90
                           51.62
                           472
                           2689.0
     

     
     
11692
                           gb|AAP84163.1|
                           (AY273869) kinase sensor protein of two component regulatory system [Pseudomonas aeruginosa]
                           1141
                           31.72
                           42.94
                           267
                           1350.0
     

     
     
11756
                           gb|AAN69015.1|AE016533_7
                           (AE016786) sensor histidine kinase/response regulator [Pseudomonas putida KT2440]
                           1284
                           24.84
                           38.23
                           391
                           668.0
     

     
     
11713
                           gb|AAO07098.1|AE016808_118
                           (AE016808) FOG: CheY-like receiver [Vibrio vulnificus CMCP6]
                           1201
                           24.31
                           37.13
                           348
                           618.0
     

     






      

          
GC ORFID: 43051How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_RL038Glimmer Score: 

          
Start: 4587228Stop: 4583974

          
Length: 3255


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_RL038 rcsC 1084 Homolog: STM2271 / Pathogenicity-related protein; a sensor of two component system / S.typhimurium LT2 (AAL21172) translation of RL038Homolog Bit Score 2140.0

          
Other Homologs:  t_RL038 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGAAGTCTGCTAGTGCCTTGGAGCACGACAACAAACTTTTGCTCAAATGGACAACCCTCTCGCAGAGCCTG 
AGCATCGGCTTGATCTGTGTGGTGGTGCTGACCGTATTGCTGTTCAGCATCTGTTACTGGTCGCTGGGGAGA 
TTGTTTCAGGAGGAGGAGGACAAAGTCTCCTTCCACTTCACCCGTATGATGGATGTTATACGGGAGCATGAG 
GTATTTCTTGGGCGCATCGCTCGAAAAAGCGACAAGACCACCCAGAAGTACGACTATGACGTGGTGCCTTTG 
CAGCGGCACTTGTTGGCAAAGGAAAACGGATTAGCGGTCTATGAGGGACGGGAGTTTTCCTTTGCTATGCCA 
TTTCTACTGGCTACCAAGCACGCGTTGAGCGCCGATTCCTCGGGAGATCCGTTTTCGCTCGGTGTATTGCTC 
GCCAATTTCTACGGAAGCTTCTGGAGTGTTTCCGCCTATCCCGCGCCACAGTTACTGATCTTTGATCTTTCC 
GGCAGCACCCGCCTGGCAGTGCCGTCGATTCCCTCCACAGCGCAGCGTGACAGGTTGAGCGGAAGCTATCCG 
ATGATAGTCGAGCGCATTCTGGCGCGCTTGCGCACCCGGCCGGTGGGGGAGGACGCTCAGCGTGTCCATTGG 
ATACGCGCTGATCGCTATCGCGACTCGGCGCTGGAGATGTTGGGAGTCGCCCGGGTTGATCTGCCGGAAACA 
CTCTGGTGGCACGACGAGCCGAACCATCTGATCATCGCTGCGAGCCTGCTTGATCTCAGGCGAATCAATGAC 
TTCGAACAGTTGGTTGAGCGCCCGGCATTCGATTCGTACAGCCTGGTATCGCCGGATGGCGAGGTATTGCTC 
GGCGCGGCCCCTGCGACCGGCCTGAGGGATGGCCTGAACCTCACCCGACAGGGGGTCGCCGTTCAACTGCGC 
AGCCAGCCTGAGAACGGCTGGCTCGCGGTCTACCGAACCGACTACGGCAATTTCTTTCGCCACTCCCGGTGG 
CTGGTGGCAGGTCTGCTGCTGACCCCGGCGCTGCTCCTGGCCGGTTGGCTCGGGATGCGTTGGTACACCAGC 
AGCGTCGTCAACCCGGTGCATCGGGCGCACCGGCAACTGGTGGAGAGCGACACCTTCAGCCGGACGCTGATA 
CAGACCGCGCCGGTGGCTCTGGTGGTGCTGACCCAGGATGACCAGCAACTGGTGACCTGCAACCACTTGGCC 
GCCCAGTGGCTGGGCGGGCCCACGGAGATCCTTGGGCTGACTTCCAACTGGAAGCTTTTCGATGCGCGTGGG 
CAGGTACCAGGAGACATCTGTATCCAGGTCGGTGGGCGCTATTTGCAGACCGCCTTCGCGGCGACCCGCTAT 
GCCGGCACCGAGGCGGTACTGTGCGTATTCAACGACATCACGGTCCACTGCGAGGCGGAGACCGCGCTGTCC 
AATGCGAAGCGAGCAGCGGATGCCGCCAGCCAGGCCAAGACCCTGTTCCTGGCCCGCATGAGCCATGAAATC 
CGTACTCCCCTGTACGGTGTCCTTGGCACCCTGGAGTTGCTCGACCTGACCACCCTGAACGAGCGGCAACGC 
GCCTACCTACGCACCATCCAGAGTTCGTCTGCGACGCTCATGCAACTGATTAGCGATGTGCTGGATGTCTCG 
AAGATCGAAGCGGGGCAGATGGCTCTGACCCTGGCCGCCTTCAATCCGCTGGACCTAGTGCGGGAAGTGCTT 
GGCAACTTTGCCGCCAGCGCCATGGCCAAGGACCTGCAGTTCTATGCCTGCATCGACACCGAAGTGCCGGCG 
CAACTGATCGGTGACGTGACGCGGATTCGCCAGGTGCTCAATAACTTGGTGAATAACGCGCTGAAGTTCACC 
GATATCGGACGGGTGGTCCTGCGCGTGAAGTTGCTCTCCCGCAATGATGGTCGAGCCCTGTTGCAGTGGCAG 
GTCGCCGACACCGGTATCGGTATCGCACACGAACAGCAGGAGCGCTTGTTCGAGGCGTTCTACCAGGTTTCG 
GGAGCGCACCATGCCGGCGGCACGGGGCTAGGACTGTCGATCTGCTGGCATCTGGCGGAAATGATGGGCGGT 
CACCTGCGAATGGTCAGCGAGACAGGGCTCGGCAGCAGCTTCAGCCTGGTGCTCGAGTTGCCCGAGGACGAA 
CAGTCCGGGCTGGCTTGCCGGCCGGGGCTCTTGAAATCCGCTTGCGTCCATGTGCGCTCGCCCGTGCGGGAG 
CTAGCCGACAGCGTAGGGGCGTGGCTGAAAGCCTGGGGCTGCAAGGTCAGCAGCGGCGAGGCGGCGCCCTCC 
GAGCTGGAGACTTGTGTGCTTCTGGAGCTGCTGCCGATGGCGGCCGGGCCTGCTTCTTCGCCCTGGCCAGGC 
CCCCGGGTGCGCGCGTCCATGGATGCGCCTTGCCAGCCGGAGCTGCGTGAGGACGGCTGGCGTGTCGGCCTG 
CACAACCTGGCGGGAATCGGCCAGGCCCTGGCGCAGGCTCTGGGTGGCGATATCCCCGAGCAAACGCCGGCA 
AATGCCTGCGCCCGCTCGGGGAGACTCGACCTGGAAGTGCTGGTCGCCGAGGACAACCCAGTCAACCAGGCG 
CTGCTTCGCGAGCAACTGGAAGAGCTGGGTTGTCGCGTGAGCCTTGCCGGCGATGGGCGGCAGGCCCTGCAG 
CTGTTCGACAGTGGTCGCTTCGACCTCCTGCTCAGCGACGTCAACATGCCGAACATGACCGGCTACGAACTG 
ACCCAGGCGCTGCGCGAACGAGGCGAGACGCTGCCGATCATCGGCGTGACCGCCAACGCCCTGCGAGAAGAG 
GGCGAGCGCTGCCGGGCAGTGGGAATGAACAGTTGGCTGGTGAAGCCGATCACTCTGCATACCTTGCATGAA 
CTGCTCAGTGAGTTCGCTCGCGCAGGTGTCGTGCTTCCCGCGCAAGCGCGAGACCTCGGCCCGCCCGCGCAG 
CTCGACGACGGTCTCTCACCGCAGGTGCCGGAACGCATGCGCGCGCTTTTCCTTGAGACCATGGGCAAGGAC 
CTGGAGGCCGCCCGGCAAGCGATTCGCCGCAACGACCCGAAGGGGCTGCAGCAGGACCTGCATCGCATGGCC 
GGCTCCCTGGCGGTGATGCGTGCGCGAACGCTGGTGGTGATGTGTCAGGGCGCCGAGGAAGGCCTGCTGGAG 
TCGCGCCTTGAATGTTCCGCCGTGGAGATTGGCGAGGTGCTCGTTCATATCGAGCAGGCGCTGGAGTTTGTG 
AGAAAGACGGGCTGA