ViewGene
Locus Name:
GeneID:
Location:

GeneID:1981
TrivialName: PA14_16500
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_16500
PAO1 Ortholog Locus:PA3702
Sequence Length:1044
Protein Length:347
Start: 1413158
Stop: 1414201
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07089.1|AE004789_9 (AE004789) probable two-component response regulator [Pseudomonas aeruginosa PAO1]
Identities = 346/347 (99%), Positives = 347/347 (100%)
Sequence:
ATGCACAACCCTCATGAGAGCAAGACCGACCTGGGCGCCCCTCTGGACGGCGCGGTCATGGTACTGCTTGTC
GATGATCAGGCCATGATCGGAGAGGCTGTGCGTCGCTCGCTGGCGAGCGAGGCGGGCATCGACTTCCACTTC
TGTTCCGATCCGCAGCAGGCGGTGGCGGTGGCCAACCAGATCAAGCCGACGGTGATCCTCCAGGACCTGGTG
ATGCCCGGCGTCGACGGCCTCACGCTGCTCGCCGCCTACCGCGGCAACCCGGCGACCCGCGACATCCCGATC
ATCGTCCTGTCGACCAAGGAAGAGCCGACGGTGAAGAGCGCGGCGTTCGCCGCCGGCGCCAACGACTACCTG
GTCAAGCTGCCGGACGCCATCGAGCTGGTGGCGCGGATCCGCTACCACTCGCGTTCGTACATCGCCCTGCAG
CAACGCGACGAGGCCTATCGGGCGCTGCGCGAGAGCCAGCAGCAGTTGCTGGAGACCAACCTGGTGCTGCAG
CGGCTGATGAACTCCGACGGCCTGACCGGGCTCTCCAACCGTCGTCACTTCGACGAATACCTGGAGATGGAG
TGGCGCCGCTCGCTGCGCGAGCAGTCGCAACTGTCGCTGCTGATGATCGACGTGGACTATTTCAAGAGCTAC
AACGACACCTTCGGCCACGTCGCCGGCGACGAGGCCCTGCGCCAGGTCGCCGGGGCCATCCGCGAGGGCTGC
AGTCGCTCCTCGGACCTGGCGGCGCGCTATGGCGGCGAGGAGTTCGCCATGGTCCTGCCGGGCACCTCGCCG
GGCGGCGCGCGGCTGCTGGCGGAAAAGGTCCGGCGTACGGTGGAGAGCCTGCAGATCAGCCACGACCAGCCA
CGCCCGGGCTCGTACCTGACCGTCAGCATCGGCGTCAGCACCCTGGTGCCGGGCGGCGGCGGACAGACCTTC
CGGGTTCTCATCGAGATGGCCGACCAGGCGCTCTACCAGGCCAAGAACAATGGCCGCAACCAGGTTGGCCTG
ATGGAACAGCCGGTGCCGCCAGCCCCGGCGGGCTGA
Translation:
MHNPHESKTDLGAPLDGAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQIKPTVILQDLV
MPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHSRSYIALQ
QRDEAYRALRESQQQLLETNLVLQRLMNSDGLTGLSNRRHFDEYLEMEWRRSLREQSQLSLLMIDVDYFKSY
NDTFGHVAGDEALRQVAGAIREGCSRSSDLAARYGGEEFAMVLPGTSPGGARLLAEKVRRTVESLQISHDQP
RPGSYLTVSIGVSTLVPGGGGQTFRVLIEMADQALYQAKNNGRNQVGLMEQPVPPAPAG*
AnnotationID:1990GeneID:1981
AnnotatorUID: danlee
Modification Date/Time: 2006-02-02 14:02:14
Gene Name:wspR
Confidence Code:3
GeneProduct:probable two-component response regulator
Cell Localization:(1) Cytoplasmic
Synonyms:
Cell Localization Confidence Code:3
MolecularFunction:
Functional Category:(16) Motility & Attachment
Alternate Gene Product Name:putative response regulator/GGDEF domain protein
Functional Category Confidence Code:5
COGs:COG3706,pfam00990,COG2199
Secondary Functional Category(ies):Chemotaxis
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67116.1|AE016340_7 (AE016779) response regulator/GGDEF domain protein [Pseudomonas
           putida KT2440]
          Length = 335

 Score =  477 bits (1227), Expect = e-134
 Identities = 243/321 (75%), Positives = 273/321 (85%), Gaps = 1/321 (0%)

>gb|AAL71852.1| (AY074937) WspR [Pseudomonas fluorescens]
          Length = 333

 Score =  469 bits (1207), Expect = e-131
 Identities = 238/321 (74%), Positives = 275/321 (85%), Gaps = 1/321 (0%)

>dbj|BAB54723.1| (AP003017) regulatory components of sensory transduction system
           [Mesorhizobium loti]
          Length = 354

 Score =  364 bits (935), Expect = e-100
 Identities = 192/335 (57%), Positives = 244/335 (72%), Gaps = 7/335 (2%)








 
Structural Features:
COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain 
[Signal transduction mechanisms]
CD-Length = 435 residues, only  73.6% aligned
Score =  317 bits (813), Expect = 3e-87
Identities = 138/338 (40%), Positives = 189/338 (55%), Gaps = 18/338 (5%)

pfam00990, GGDEF, GGDEF domain.
CD-Length = 165 residues, 100.0% aligned
Score =  186 bits (474), Expect = 7e-48
Identities = 82/167 (49%), Positives = 112/167 (67%), Gaps = 2/167 (1%)

COG2199, COG2199, FOG: GGDEF domain 
[Signal transduction mechanisms]
CD-Length = 181 residues,  98.3% aligned
Score =  172 bits (436), Expect = 1e-43
Identities = 82/183 (44%), Positives = 108/183 (59%), Gaps = 5/183 (2%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3965




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21111




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31848




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1981_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1981
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3445
                           PA3702_tr
                           translation of PA3702
                           347
                           99.71
                           99.99
                           0
                           1751.0
     

     
     
105729
                           gb|AAG07089.1|AE004789_9
                           (AE004789) probable two-component response regulator [Pseudomonas aeruginosa PAO1]
                           347
                           99.71
                           99.99
                           0
                           1751.0
     

     
     
105730
                           gb|AAO55020.1|
                           (AE016861) response regulator/GGDEF domain protein [Pseudomonas syringae pv. tomato str. DC3000]
                           352
                           71.59
                           78.12
                           23
                           1230.0
     

     
     
105731
                           gb|AAN67116.1|AE016340_7
                           (AE016779) response regulator/GGDEF domain protein [Pseudomonas putida KT2440]
                           354
                           69.77
                           78.53
                           26
                           1227.0
     

     
     
105732
                           gb|AAL71852.1|
                           (AY074937) WspR [Pseudomonas fluorescens]
                           349
                           69.34
                           80.80
                           18
                           1204.0
     

     






      

          
GC ORFID: 44983How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3702Glimmer Score: 

          
Start: 3540779Stop: 3539736

          
Length: 1044


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3702 translation of PA3702Homolog Bit Score 679.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4587 (ORF: BLASTX 488.0), t_PA3702 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCACAACCCTCATGAGAGCAAGACCGACCTGGGCGCCCCTCTGGACGGCGCGGTCATGGTACTGCTTGTC 
GATGATCAGGCCATGATCGGAGAGGCTGTGCGTCGCTCGCTGGCGAGCGAGGCGGGCATCGACTTCCACTTC 
TGTTCCGATCCGCAGCAGGCGGTGGCGGTGGCCAACCAGATCAAGCCGACGGTGATCCTCCAGGACCTGGTG 
ATGCCCGGCGTCGACGGCCTCACGCTGCTCGCCGCCTACCGCGGCAACCCGGCGACCCGCGACATCCCGATC 
ATCGTCCTGTCGACCAAGGAAGAGCCGACGGTGAAGAGCGCGGCGTTCGCCGCCGGCGCCAACGACTACCTG 
GTCAAGCTGCCGGACGCCATCGAGCTGGTGGCGCGGATCCGCTACCACTCGCGTTCGTACATCGCCCTGCAG 
CAACGCGACGAGGCCTATCGGGCGCTGCGCGAGAGCCAGCAGCAGTTGCTGGAGACCAACCTGGTGCTGCAG 
CGGCTGATGAACTCCGACGGCCTGACCGGGCTCTCCAACCGTCGTCACTTCGACGAATACCTGGAGATGGAG 
TGGCGCCGCTCGCTGCGCGAGCAGTCGCAACTGTCGCTGCTGATGATCGACGTGGACTATTTCAAGAGCTAC 
AACGACACCTTCGGCCACGTCGCCGGCGACGAGGCCCTGCGCCAGGTCGCCGGGGCCATCCGCGAGGGCTGC 
AGTCGCTCCTCGGACCTGGCGGCGCGCTATGGCGGCGAGGAGTTCGCCATGGTCCTGCCGGGCACCTCGCCG 
GGCGGCGCGCGGCTGCTGGCGGAAAAGGTCCGGCGTACGGTGGAGAGCCTGCAGATCAGCCACGACCAGCCA 
CGCCCGGGCTCGTACCTGACCGTCAGCATCGGCGTCAGCACCCTGGTGCCGGGCGGCGGCGGACAGACCTTC 
CGGGTTCTCATCGAGATGGCCGACCAGGCGCTCTACCAGGCCAAGAACAATGGCCGCAACCAGGTTGGCCTG 
ATGGAACAGCCGGTGCCGCCAGCCCCGGCGGGCTGA