ViewGene
Locus Name:
GeneID:
Location:

GeneID:378
TrivialName: PA14_72420
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_72420
PAO1 Ortholog Locus:PA5487
Sequence Length:2016
Protein Length:671
Start: 6452962
Stop: 6450947
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08872.1|AE004961_7 (AE004961) hypothetical protein [Pseudomonas aeruginosa PAO1]
Identities = 663/671 (98%), Positives = 665/671 (99%)
Sequence:
ATGAGTCgCGACGACGTCCAGCGCTGGAAAGACAAGTACCTGGAGAACATCGAGCAGCAGGAGCGCCTGCAA
CGGCGCTGGGATGCCCGGATCGACCTGCTGCGTCGCGGCCTGGTGCGTAGCAGTCTGGCGGCCGAAGGCAGC
GACAAGGCGGTCGACCAGTGCATGAAGGAGCTGCGCGAGATCCTCCGTCGCGACGACATGGACGCCGGCCTG
TCGGGCCTGATTCCGCGCCTGGAAAAGGCCGTGCTCGACTCCGAACAGCGCCGCCAGCAACGCACCCAGCAG
AACATCGATGCTCTCGGCGAACTGGCCCAGCAGTTGCTGGCCCTGGACCTGCCGCGGGAACTGCGCAAGCCG
CTGAAGCAGTTCGCCCGCGATATCGAGGAGCGCGCCCGGCAGTCGCGCGAGATTCCGATCCTGCTCAGCGAG
CTGAGCAGGCTGCAACGCCAGGCGCTGGCCGAGCGCAAGGGCGGCGACGCCGAAGACGGTCGCCCGAGCCTG
TTGCAACGCCTGTTCGGCGGCAAGGAGTCGGAAACCGCCGCGGAGCCGAGCGCATCGGTGCCGTCCGTTGTG
GCGGCAAGCAATACACCGATCCAACCGGCGGCGGCCGCGCCGTCCCTGCCGGTCGCCGAGCACGACGAGGCG
CCAGGCGGCCCGCCGCAGCCGTTGCCCGCCAGCAGGGTCGCCGCCATCGAAAGCGCGCCAGCGGGTTGGGTC
GGGGTCGCCGAGCGTGGCGAGCCGAACCAGATCCTGCTGGATGAGCCTCGGGAAATCTGGCTCGACAGCCTG
CCGCTGCCGGCCGGCCTGAGCTTTAGCGAGACGCTGGAAGACGCGGGTGCGGAGTCGCCGCCCGCAGTGCCG
GCGGACGTTGAAAGCGCGCCCGAAGCTCCGGCCACCCCTGTGGATAACCTCGACGGGCAGGCGGTAGACGAG
GCCTACGAACTGCcgccgccgATACCGGAGCCCGGCTACAGCGCGGTGGCGCCGCACATCGAGGCCaGCCTG
CTGCGGCTGCTCGACGGCCTGTCCCTgccgAGCAGCCACCAGCCCCAgGCCGAGGCGCTGCGGGAGCGGATC
GATGGCAGCCTGAACTGGTATGAGCTGGTGCCGGTACTCGACGACCTGGCGGTGCTGGTGCTGTCCCTGGCG
GACAGTGGCCAGCGCGACTTCGAGGAATACCTGCGGCAACTCAACGAGCGCCTGGAAAGCTTCCTCGGCCAC
CTGGGCGACGCCCACGCCGGCTATACCGACGTGCTGGACAACGCGCGCGGCTTCGACCAATCGCTGCGTGAG
CAGGTCAGCGGCCTGCAGGCCAGCGTGCAGCAGGCGACCGACCTGAACAGCCTCAAGCTGGCGGTGGACAGC
CGGCTGAACGGCCTGCTTGCCTCCATGGACGAACACCAGCGCGAACAGGCCGAGCACGAACAGGAGGTGTCC
GGCCGCCTGCAGGCGCTGATGGAGCGGGTCAACAGCATGGAGCAGGATGCCAAGGCGTTCCACAGCCACCTG
GAGGACCAGCGACAGAAAGCCCTGACCGATCCGCTGACCGGCCTGCCCAACCGCGCGGCGCTCAGCGAGCGC
CTGGAACAGGAGGTGGCGCGCCGGCACCGGGATGGCGGCGATCTGCTGCTGGCGGTGCTGGACATCGACCAC
TTCAAGCGGATCAACGACGACTTCGGCCACCTGGCCGGGGACAAGGTGCTGAAGATCATTGCCGGCGAATTG
CGCAAACGGTTGCGCCAGGCCGATTTCATCGCCCGTTTCGGCGGCGAGGAGTTCGTCGTCCTGCTCCCGGCA
ACGTCCCTGGAAGCCGGCCGGCAACTACTCGAACGGCTGCGCGCGGCGATCGCCGCCTGTCCGTTCCATTTC
AAGGGCGAGCCCCTGAGCATCACCTGTTCCGCCGGCATCACCGCGTTCGAAGGCAACGAGGCCGGCGAAGTG
GTTTTCGAGCGCGCCGACCAGGCGCTGTATCGAGCCAAGCGCGCCGGCCGGGACCGCCTGGAAGTGGCCTGA
Translation:
MSRDDVQRWKDKYLENIEQQERLQRRWDARIDLLRRGLVRSSLAAEGSDKAVDQCMKELREILRRDDMDAGL
SGLIPRLEKAVLDSEQRRQQRTQQNIDALGELAQQLLALDLPRELRKPLKQFARDIEERARQSREIPILLSE
LSRLQRQALAERKGGDAEDGRPSLLQRLFGGKESETAAEPSASVPSVVAASNTPIQPAAAAPSLPVAEHDEA
PGGPPQPLPASRVAAIESAPAGWVGVAERGEPNQILLDEPREIWLDSLPLPAGLSFSETLEDAGAESPPAVP
ADVESAPEAPATPVDNLDGQAVDEAYELPPPIPEPGYSAVAPHIEASLLRLLDGLSLPSSHQPQAEALRERI
DGSLNWYELVPVLDDLAVLVLSLADSGQRDFEEYLRQLNERLESFLGHLGDAHAGYTDVLDNARGFDQSLRE
QVSGLQASVQQATDLNSLKLAVDSRLNGLLASMDEHQREQAEHEQEVSGRLQALMERVNSMEQDAKAFHSHL
EDQRQKALTDPLTGLPNRAALSERLEQEVARRHRDGGDLLLAVLDIDHFKRINDDFGHLAGDKVLKIIAGEL
RKRLRQADFIARFGGEEFVVLLPATSLEAGRQLLERLRAAIAACPFHFKGEPLSITCSAGITAFEGNEAGEV
VFERADQALYRAKRAGRDRLEVA*
AnnotationID:387GeneID:378
AnnotatorUID: diggins
Modification Date/Time: 2005-03-21 07:07:47
Gene Name:
Confidence Code:3
GeneProduct:putative GGDEF domain protein
Cell Localization:()
Synonyms:PA5487
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2199,pfam00990,smart00267
Secondary Functional Category(ies):signal transduction mechanism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65763.1|AE016202_6 (AE016774) GGDEF domain protein [Pseudomonas putida KT2440]
          Length = 645

 Score =  643 bits (1659), Expect = 0.0
 Identities = 359/677 (53%), Positives = 455/677 (67%), Gaps = 47/677 (6%)

>gb|AAO53884.1| (AE016857) GGDEF domain protein [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 677

 Score =  641 bits (1653), Expect = 0.0
 Identities = 363/689 (52%), Positives = 459/689 (66%), Gaps = 39/689 (5%)








 
Structural Features:
COG2199, COG2199, FOG: GGDEF domain [Signal transduction mechanisms]
CD-Length = 181 residues,  99.4% aligned
Score =  168 bits (426), Expect = 2e-42
Identities = 90/181 (49%), Positives = 118/181 (65%), Gaps = 3/181 (1%)

pfam00990, GGDEF, GGDEF domain. 
CD-Length = 165 residues,  99.4% aligned
Score =  163 bits (415), Expect = 5e-41
Identities = 81/164 (49%), Positives = 105/164 (64%), Gaps = 4/164 (2%)

smart00267, DUF1, Domain of Unknown Function with GGDEF motif
CD-Length = 172 residues,  99.4% aligned
Score =  158 bits (401), Expect = 2e-39
Identities = 74/172 (43%), Positives = 101/172 (58%), Gaps = 2/172 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:759




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17901




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33237




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:378_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:378
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
632
                           PA5487_tr
                           translation of PA5487
                           671
                           98.80
                           99.10
                           0
                           3340.0
     

     
     
29354
                           gb|AAG08872.1|AE004961_7
                           (AE004961) hypothetical protein PA5487 [Pseudomonas aeruginosa PAO1]
                           671
                           98.80
                           99.10
                           0
                           3340.0
     

     
     
29356
                           gb|AAO53884.1|
                           (AE016857) GGDEF domain protein [Pseudomonas syringae pv. tomato str. DC3000]
                           707
                           52.89
                           66.61
                           66
                           1698.0
     

     
     
29355
                           gb|AAN65763.1|AE016202_6
                           (AE016774) GGDEF domain protein [Pseudomonas putida KT2440]
                           682
                           52.63
                           66.71
                           48
                           1691.0
     

     
     
29358
                           gb|AAQ61796.1|
                           (AE016924) conserved hypothetical protein [Chromobacterium violaceum ATCC 12472]
                           723
                           27.10
                           39.28
                           190
                           404.0
     

     






      

          
GC ORFID: 43380How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5487Glimmer Score: 

          
Start: 5716651Stop: 5714636

          
Length: 2016


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5487 translation of PA5487Homolog Bit Score 1291.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3901 (ORF: BLASTX 630.0), t_PA3177 (ORF: BLASTX 139.0), psyr_15may02_Scaffold8_revised_gene7692 (ORF: BLASTX 127.0), t_PA5487 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGTCgCGACGACGTCCAGCGCTGGAAAGACAAGTACCTGGAGAACATCGAGCAGCAGGAGCGCCTGCAA 
CGGCGCTGGGATGCCCGGATCGACCTGCTGCGTCGCGGCCTGGTGCGTAGCAGTCTGGCGGCCGAAGGCAGC 
GACAAGGCGGTCGACCAGTGCATGAAGGAGCTGCGCGAGATCCTCCGTCGCGACGACATGGACGCCGGCCTG 
TCGGGCCTGATTCCGCGCCTGGAAAAGGCCGTGCTCGACTCCGAACAGCGCCGCCAGCAACGCACCCAGCAG 
AACATCGATGCTCTCGGCGAACTGGCCCAGCAGTTGCTGGCCCTGGACCTGCCGCGGGAACTGCGCAAGCCG 
CTGAAGCAGTTCGCCCGCGATATCGAGGAGCGCGCCCGGCAGTCGCGCGAGATTCCGATCCTGCTCAGCGAG 
CTGAGCAGGCTGCAACGCCAGGCGCTGGCCGAGCGCAAGGGCGGCGACGCCGAAGACGGTCGCCCGAGCCTG 
TTGCAACGCCTGTTCGGCGGCAAGGAGTCGGAAACCGCCGCGGAGCCGAGCGCATCGGTGCCGTCCGTTGTG 
GCGGCAAGCAATACACCGATCCAACCGGCGGCGGCCGCGCCGTCCCTGCCGGTCGCCGAGCACGACGAGGCG 
CCAGGCGGCCCGCCGCAGCCGTTGCCCGCCAGCAGGGTCGCCGCCATCGAAAGCGCGCCAGCGGGTTGGGTC 
GGGGTCGCCGAGCGTGGCGAGCCGAACCAGATCCTGCTGGATGAGCCTCGGGAAATCTGGCTCGACAGCCTG 
CCGCTGCCGGCCGGCCTGAGCTTTAGCGAGACGCTGGAAGACGCGGGTGCGGAGTCGCCGCCCGCAGTGCCG 
GCGGACGTTGAAAGCGCGCCCGAAGCTCCGGCCACCCCTGTGGATAACCTCGACGGGCAGGCGGTAGACGAG 
GCCTACGAACTGCcgccgccgATACCGGAGCCCGGCTACAGCGCGGTGGCGCCGCACATCGAGGCCaGCCTG 
CTGCGGCTGCTCGACGGCCTGTCCCTgccgAGCAGCCACCAGCCCCAgGCCGAGGCGCTGCGGGAGCGGATC 
GATGGCAGCCTGAACTGGTATGAGCTGGTGCCGGTACTCGACGACCTGGCGGTGCTGGTGCTGTCCCTGGCG 
GACAGTGGCCAGCGCGACTTCGAGGAATACCTGCGGCAACTCAACGAGCGCCTGGAAAGCTTCCTCGGCCAC 
CTGGGCGACGCCCACGCCGGCTATACCGACGTGCTGGACAACGCGCGCGGCTTCGACCAATCGCTGCGTGAG 
CAGGTCAGCGGCCTGCAGGCCAGCGTGCAGCAGGCGACCGACCTGAACAGCCTCAAGCTGGCGGTGGACAGC 
CGGCTGAACGGCCTGCTTGCCTCCATGGACGAACACCAGCGCGAACAGGCCGAGCACGAACAGGAGGTGTCC 
GGCCGCCTGCAGGCGCTGATGGAGCGGGTCAACAGCATGGAGCAGGATGCCAAGGCGTTCCACAGCCACCTG 
GAGGACCAGCGACAGAAAGCCCTGACCGATCCGCTGACCGGCCTGCCCAACCGCGCGGCGCTCAGCGAGCGC 
CTGGAACAGGAGGTGGCGCGCCGGCACCGGGATGGCGGCGATCTGCTGCTGGCGGTGCTGGACATCGACCAC 
TTCAAGCGGATCAACGACGACTTCGGCCACCTGGCCGGGGACAAGGTGCTGAAGATCATTGCCGGCGAATTG 
CGCAAACGGTTGCGCCAGGCCGATTTCATCGCCCGTTTCGGCGGCGAGGAGTTCGTCGTCCTGCTCCCGGCA 
ACGTCCCTGGAAGCCGGCCGGCAACTACTCGAACGGCTGCGCGCGGCGATCGCCGCCTGTCCGTTCCATTTC 
AAGGGCGAGCCCCTGAGCATCACCTGTTCCGCCGGCATCACCGCGTTCGAAGGCAACGAGGCCGGCGAAGTG 
GTTTTCGAGCGCGCCGACCAGGCGCTGTATCGAGCCAAGCGCGCCGGCCGGGACCGCCTGGAAGTGGCCTGA