ViewGene
Locus Name:
GeneID:
Location:

GeneID:4058
TrivialName: PA14_40150
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_40150
PAO1 Ortholog Locus:PA1884
Sequence Length:552
Protein Length:183
Start: 3578194
Stop: 3578745
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05273.1|AE004614_7 (AE004614) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 182/183 (99%), Positives = 183/183 (100%)
Sequence:
ATGGATATCGACGAACTGATTGCCCGACGCCTAGCCGCCCTGCGCAAGGAGCGCGAGCTGACCCTCGCCCAA
CTGGCCGAACGCTGCGCGGTGAGCAAGGCGATGATCTCGCGCATCGAGCGCAACCAAAGCAGCCCCACCGCC
AGCGTCCTCGGCCGTCTCGCCGGCGGCCTGGGGGTCGCCCTCTCCGAGCTGCTCGGCGACGCGCAGGCGCCG
GCCGAACCGCTCTGCCGGCGCGCGCAGCAGGAAGTGTGGGAAGACCCGGCCAGCGGCTACCGCCGCCGCCAG
GTCGGCGCTCGCGATCCGCGCAGCGGCTGCGAAATGGTGGAAGTGGAGATCCCggCGAACGCCCGCCTCGAC
TATCCCCGCTGGGGCGGCCGGCCCTACCGGCAGCGCCTGTGGCTGGTCGAGGGTGCGCTGCGGGTGGACTAC
GGCGAGCAAACGTTCCACCTGCAACGCGGCGACCGCCTGGACTTCGGCGTCGACCGCGCGGTGACCTTCGCC
ACCGCCGGGCAAGCCTGCCGCTACCTGCTGGTGATCCTCCACGACTAG
Translation:
MDIDELIARRLAALRKERELTLAQLAERCAVSKAMISRIERNQSSPTASVLGRLAGGLGVALSELLGDAQAP
AEPLCRRAQQEVWEDPASGYRRRQVGARDPRSGCEMVEVEIPANARLDYPRWGGRPYRQRLWLVEGALRVDY
GEQTFHLQRGDRLDFGVDRAVTFATAGQACRYLLVILHD*
AnnotationID:4065GeneID:4058
AnnotatorUID: diggins
Modification Date/Time: 2005-03-02 08:08:26
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA1884
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:cd00093,smart00530,pfam01381,COG1396
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>dbj|BAC46380.1| (AP005939) blr1115 [Bradyrhizobium japonicum USDA 110]
          Length = 196

 Score =  147 bits (371), Expect = 3e-35
 Identities = 81/178 (45%), Positives = 109/178 (61%), Gaps = 1/178 (0%)

>emb|CAD16841.1| (AL646073) PUTATIVE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia
           solanacearum]
          Length = 209

 Score =  141 bits (355), Expect = 2e-33
 Identities = 85/183 (46%), Positives = 113/183 (61%), Gaps = 6/183 (3%)








 
Structural Features:
cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
CD-Length = 58 residues, 100.0% aligned
Score = 55.9 bits (135), Expect = 2e-09
Identities = 28/58 (48%), Positives = 38/58 (65%)
 
smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins
CD-Length = 56 residues, 100.0% aligned
Score = 55.5 bits (134), Expect = 4e-09
Identities = 26/56 (46%), Positives = 37/56 (66%)

pfam01381, HTH_3, Helix-turn-helix. 
CD-Length = 55 residues, 100.0% aligned
Score = 52.8 bits (127), Expect = 3e-08
Identities = 25/55 (45%), Positives = 35/55 (63%)

COG1396, HipB, Predicted transcriptional regulators [Transcription]
CD-Length = 120 residues,  99.2% aligned
Score = 51.2 bits (120), Expect = 6e-08
Identities = 38/119 (31%), Positives = 57/119 (47%), Gaps = 9/119 (7%)








   
Genomic Context:






   
Comment:


















    ReferenceID:8118




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25261




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36522




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4058_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4058
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6301
                           PA1884_tr
                           translation of PA1884
                           183
                           99.45
                           99.99
                           0
                           937.0
     

     
     
173342
                           gb|AAG05273.1|AE004614_7
                           (AE004614) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           183
                           99.45
                           99.99
                           0
                           937.0
     

     
     
173343
                           dbj|BAC46380.1|
                           (AP005939) blr1115 [Bradyrhizobium japonicum USDA 110]
                           196
                           42.34
                           56.63
                           13
                           369.0
     

     
     
173344
                           emb|CAD16841.1|
                           (AL646073) PUTATIVE TRANSCRIPTION REGULATOR PROTEIN [Ralstonia solanacearum]
                           210
                           40.47
                           53.80
                           28
                           358.0
     

     
     
173345
                           dbj|BAC00181.1|
                           (AP005282) Predicted transcriptional regulators [Corynebacterium glutamicum ATCC 13032]
                           192
                           39.06
                           57.29
                           12
                           329.0
     

     






      

          
GC ORFID: 47060How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1884Glimmer Score: 

          
Start: 1375716Stop: 1375165

          
Length: 552


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA1884 translation of PA1884Homolog Bit Score 365.0

          
Other Homologs:  t_PA1884 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGATATCGACGAACTGATTGCCCGACGCCTAGCCGCCCTGCGCAAGGAGCGCGAGCTGACCCTCGCCCAA 
CTGGCCGAACGCTGCGCGGTGAGCAAGGCGATGATCTCGCGCATCGAGCGCAACCAAAGCAGCCCCACCGCC 
AGCGTCCTCGGCCGTCTCGCCGGCGGCCTGGGGGTCGCCCTCTCCGAGCTGCTCGGCGACGCGCAGGCGCCG 
GCCGAACCGCTCTGCCGGCGCGCGCAGCAGGAAGTGTGGGAAGACCCGGCCAGCGGCTACCGCCGCCGCCAG 
GTCGGCGCTCGCGATCCGCGCAGCGGCTGCGAAATGGTGGAAGTGGAGATCCCggCGAACGCCCGCCTCGAC 
TATCCCCGCTGGGGCGGCCGGCCCTACCGGCAGCGCCTGTGGCTGGTCGAGGGTGCGCTGCGGGTGGACTAC 
GGCGAGCAAACGTTCCACCTGCAACGCGGCGACCGCCTGGACTTCGGCGTCGACCGCGCGGTGACCTTCGCC 
ACCGCCGGGCAAGCCTGCCGCTACCTGCTGGTGATCCTCCACGACTAG