ViewGene
Locus Name:
GeneID:
Location:

GeneID:2452
TrivialName: PA14_23130
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23130
PAO1 Ortholog Locus:PA3177
Sequence Length:924
Protein Length:307
Start: 2006346
Stop: 2005423
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06565.1|AE004742_1 (AE004742) hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 307/307 (100%), Positives = 307/307 (100%)
Sequence:
ATGGCTCCTCCCAAGCAGTCCAATACCATCGATTTCGACGCCGCCAAGCAGAAGCGCGGCCCCCAGCCCGGC
GGCAACGCCAGCGGGCCGCGCGCCAGCAACCTGACGGAGTTGCGCCAGCAACTGACCCTACAGTTGCAGAGC
AGCCTGGAGGCGGAGCGGATTCTCGGCCTGTTCTTCGAGGAAGTCCGCCAACTGATCCCGCTGGACGCCCTT
GGCTACCGCCATCCGGGCTCCGACCTGCGCCTGGAGTTCGGCAGCAGCGCCAAGCATTCGGTGAGCTATCGC
CTGAGCCATGACAGCGACTACCTCGGCGAACTGATCTTCCGTCGCCGCCAGCGCCTCGGCGAAGACGAACAA
CGGCAACTGGAGAGCCTGCTCGGCACCCTGCTGTTCCCGCTGCGCAACGCCCTGCTCTATCGCGCCGCGATC
CAGACCGCCCTGCGCGACGCCCTGACCGGCACCGGCAACCGCATCGCCATGGACCAGGCGCTCGGCCGCGAA
CTGGAACTGGCCCGGCGCAACCTGCAACCGCTCTCGGTGCTGATGCTCGATATCGACCACTTCAAGCGGGTC
AACGACCACTACGGTCACGCCGTCGGCGACGAAGCCCTCAAGGCCGTGGCGGAAACCATCAAGGACCACCTG
CGCAATGTCGACATGGTGTTCCGCTTCGGCGGCGAGGAATTCCTCGTCCTGCTGTCCAGCACGCCGCTGCAG
GCTGCCTGCATGGTCGGCGAACGCCTGCGCCAGGCGGTGGAGGAACTGGACTACCGGCACGCCGGCGAACCG
CTGAAGCTGTCGATCAGCCTCGGTTGCGCCGACCTGCGGCCCGGCGAAGGCAGCGACGACCTGCTGCGACGG
GTCGACGAGGCGCTCTACGAAGCCAAGCGCGACGGCCGCAACCGCCTGCGCTGCGCCTGA
Translation:
MAPPKQSNTIDFDAAKQKRGPQPGGNASGPRASNLTELRQQLTLQLQSSLEAERILGLFFEEVRQLIPLDAL
GYRHPGSDLRLEFGSSAKHSVSYRLSHDSDYLGELIFRRRQRLGEDEQRQLESLLGTLLFPLRNALLYRAAI
QTALRDALTGTGNRIAMDQALGRELELARRNLQPLSVLMLDIDHFKRVNDHYGHAVGDEALKAVAETIKDHL
RNVDMVFRFGGEEFLVLLSSTPLQAACMVGERLRQAVEELDYRHAGEPLKLSISLGCADLRPGEGSDDLLRR
VDEALYEAKRDGRNRLRCA*
AnnotationID:2460GeneID:2452
AnnotatorUID: diggins
Modification Date/Time: 2005-04-14 06:06:54
Gene Name:
Confidence Code:3
GeneProduct:putative sensory box/GGDEF domain protein
Cell Localization:()
Synonyms:PA3177
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:smart00267,pfam00990,COG2199
Secondary Functional Category(ies):signal transduction mechanism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55259.1| (AE016862) GGDEF domain protein [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 308

 Score =  307 bits (787), Expect = 4e-83
 Identities = 168/305 (55%), Positives = 213/305 (69%), Gaps = 2/305 (0%)

>gb|AAO08456.1|AE016813_208 (AE016813) Sensor histidine kinase [Vibrio vulnificus CMCP6]
          Length = 387

 Score =  144 bits (364), Expect = 5e-34
 Identities = 77/169 (45%), Positives = 105/169 (62%), Gaps = 1/169 (0%)

>gb|AAO54868.1| (AE016860) sensory box/GGDEF domain protein [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 425

 Score =  141 bits (355), Expect = 6e-33
 Identities = 75/164 (45%), Positives = 104/164 (63%), Gaps = 3/164 (1%)






 
Structural Features:
smart00267, DUF1, Domain of Unknown Function with GGDEF motif
CD-Length = 172 residues,  94.8% aligned
Score =  154 bits (390), Expect = 2e-38
Identities = 74/164 (45%), Positives = 107/164 (65%), Gaps = 2/164 (1%)

pfam00990, GGDEF, GGDEF domain
CD-Length = 165 residues,  97.6% aligned
Score =  165 bits (420), Expect = 5e-42
Identities = 77/161 (47%), Positives = 107/161 (66%), Gaps = 4/161 (2%)

COG2199, COG2199, FOG: GGDEF domain [Signal transduction mechanisms]
CD-Length = 181 residues,  96.7% aligned
Score =  153 bits (388), Expect = 2e-38
Identities = 79/176 (44%), Positives = 109/176 (61%), Gaps = 3/176 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4907




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22053




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32367




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2452_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:2452
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4110
                           PA3177_tr
                           translation of PA3177
                           307
                           99.99
                           99.99
                           0
                           1555.0
     

     
     
122811
                           gb|AAG06565.1|AE004742_1
                           (AE004742) hypothetical protein PA3177 [Pseudomonas aeruginosa PAO1]
                           307
                           99.99
                           99.99
                           0
                           1555.0
     

     
     
122812
                           gb|AAO55259.1|
                           (AE016862) GGDEF domain protein [Pseudomonas syringae pv. tomato str. DC3000]
                           309
                           54.69
                           69.25
                           3
                           790.0
     

     
     
122823
                           gb|AAQ58065.2|
                           (AE016911) conserved hypothetical protein [Chromobacterium violaceum ATCC 12472]
                           360
                           31.11
                           42.50
                           79
                           341.0
     

     
     
122832
                           gb|AAR35017.1|
                           (AE017212) GGDEF/response regulator receiver domain protein [Geobacter sulfurreducens PCA]
                           336
                           29.46
                           45.53
                           49
                           316.0
     

     






      

          
GC ORFID: 45454How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3177Glimmer Score: 

          
Start: 2947585Stop: 2948508

          
Length: 924


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3177 translation of PA3177Homolog Bit Score 603.0

          
Other Homologs:  psyr_15may02_Scaffold8_revised_gene7692 (ORF: BLASTX 302.0), t_PA3177 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTCCTCCCAAGCAGTCCAATACCATCGATTTCGACGCCGCCAAGCAGAAGCGCGGCCCCCAGCCCGGC 
GGCAACGCCAGCGGGCCGCGCGCCAGCAACCTGACGGAGTTGCGCCAGCAACTGACCCTACAGTTGCAGAGC 
AGCCTGGAGGCGGAGCGGATTCTCGGCCTGTTCTTCGAGGAAGTCCGCCAACTGATCCCGCTGGACGCCCTT 
GGCTACCGCCATCCGGGCTCCGACCTGCGCCTGGAGTTCGGCAGCAGCGCCAAGCATTCGGTGAGCTATCGC 
CTGAGCCATGACAGCGACTACCTCGGCGAACTGATCTTCCGTCGCCGCCAGCGCCTCGGCGAAGACGAACAA 
CGGCAACTGGAGAGCCTGCTCGGCACCCTGCTGTTCCCGCTGCGCAACGCCCTGCTCTATCGCGCCGCGATC 
CAGACCGCCCTGCGCGACGCCCTGACCGGCACCGGCAACCGCATCGCCATGGACCAGGCGCTCGGCCGCGAA 
CTGGAACTGGCCCGGCGCAACCTGCAACCGCTCTCGGTGCTGATGCTCGATATCGACCACTTCAAGCGGGTC 
AACGACCACTACGGTCACGCCGTCGGCGACGAAGCCCTCAAGGCCGTGGCGGAAACCATCAAGGACCACCTG 
CGCAATGTCGACATGGTGTTCCGCTTCGGCGGCGAGGAATTCCTCGTCCTGCTGTCCAGCACGCCGCTGCAG 
GCTGCCTGCATGGTCGGCGAACGCCTGCGCCAGGCGGTGGAGGAACTGGACTACCGGCACGCCGGCGAACCG 
CTGAAGCTGTCGATCAGCCTCGGTTGCGCCGACCTGCGGCCCGGCGAAGGCAGCGACGACCTGCTGCGACGG 
GTCGACGAGGCGCTCTACGAAGCCAAGCGCGACGGCCGCAACCGCCTGCGCTGCGCCTGA