ViewGene
Locus Name:
GeneID:
Location:

GeneID:3087
TrivialName: PA14_48310
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_48310
PAO1 Ortholog Locus:PA1235
Sequence Length:783
Protein Length:260
Start: 4298951
Stop: 4298169
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04624.1|AE004553_1 (AE004553) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 257/260 (98%), Positives = 259/260 (99%)
Sequence:
ATGCTGATCGACCTGCCTTCCACCCGTCCGGTCTTCGCCTATGCCCAGGATTATCTCCACGGCGAGCGCGTC
GAGCTGCACCGGCATTCGCGCGCGCAATTGATCCATGCGCTCAGCGGGGTGGTCACGGTCGGCACCGCCGAG
GGCACCTGGGTGGTGCCGCCGGGACGCGGTGTCTGGTTGCCGGCCGGTATCGAGCATGCCCTGCGTTTCGCC
GGCCAGGTGCGCATGCGCACCTTGTTCATCGCCCCGCAGGCGCGCCACGACCTACCGCAGGACTGCCGGGTG
GTGGACGTGCCGCCGTTGCTGCGGCAATTGATCGTCGCGGCGATGCGGATCGCGCCGGACTACCCGCCGGGC
GGCCGCGACGAGCGGGTGATGGAGCTGATCCTCGATGAACTGCGGGTGCTGCCGATCCTCGCCCTGCACGTG
CCACAGCCGGTCGATCGGCAACTGGCGGCGCTGTGCCGCAGCCTGCGCGCCGAGCCGGCCGCCGACTGGAGC
CTGGGCGATGCCGCGCGTCGCCTGGGCGTCAGCCCGCGGACCCTGACTCGCGCCTTCCAGCGCGAAACCGGT
CTCAGCTTCGTCCAGTGGCTGCGGCGCATGCGCCTGCTCGCCAGCCTCGATGCGCTGGCGGCAGGGCATTCG
ATCCTCGAGGTCGCACTGGACCTCGGCTACGACAGCCAGAGCGCCTTCAGCGCCATGTTTCGCCGGACCCTG
GGCGTTTCGCCGAGCCTCTATTTCGGCCGCGGCGCCGCCTACGGGGTGGCCGAGGGCGACTGA
Translation:
MLIDLPSTRPVFAYAQDYLHGERVELHRHSRAQLIHALSGVVTVGTAEGTWVVPPGRGVWLPAGIEHALRFA
GQVRMRTLFIAPQARHDLPQDCRVVDVPPLLRQLIVAAMRIAPDYPPGGRDERVMELILDELRVLPILALHV
PQPVDRQLAALCRSLRAEPAADWSLGDAARRLGVSPRTLTRAFQRETGLSFVQWLRRMRLLASLDALAAGHS
ILEVALDLGYDSQSAFSAMFRRTLGVSPSLYFGRGAAYGVAEGD*
AnnotationID:3095GeneID:3087
AnnotatorUID: diggins
Modification Date/Time: 2005-02-22 08:08:35
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA1235
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:smart00342
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>emb|CAE30928.1| (BX640438) probable transcriptional regulator [Bordetella
           bronchiseptica]
          Length = 269

 Score =  253 bits (645), Expect = 1e-66
 Identities = 124/244 (50%), Positives = 171/244 (70%)

>emb|CAD44484.1| (AJ297529) AraC protein [Pseudomonas stutzeri]
          Length = 275

 Score =  212 bits (539), Expect = 2e-54
 Identities = 100/238 (42%), Positives = 154/238 (64%)








 
Structural Features:
mart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein
CD-Length = 84 residues,  98.8% aligned
Score = 91.4 bits (227), Expect = 1e-19
Identities = 37/83 (44%), Positives = 50/83 (60%), Gaps = 1/83 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6177




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23319




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37528




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3087_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3087
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4972
                           PA1235_tr
                           translation of PA1235
                           260
                           98.84
                           99.61
                           0
                           1319.0
     

     
     
140421
                           gb|AAG04624.1|AE004553_1
                           (AE004553) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           260
                           98.84
                           99.61
                           0
                           1319.0
     

     
     
140423
                           emb|CAE40667.1|
                           (BX640411) probable transcriptional regulator [Bordetella pertussis] [Bordetella pertussis Tohama I]
                           274
                           46.35
                           62.04
                           19
                           627.0
     

     
     
140429
                           emb|CAE30104.1|
                           (BX572608) CUPIN domain:transcriptional regulator, AraC family [Rhodopseudomonas palustris CGA009]
                           261
                           45.59
                           57.85
                           14
                           502.0
     

     
     
140422
                           emb|CAE30928.1|
                           (BX640438) probable transcriptional regulator [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           274
                           45.25
                           62.77
                           19
                           630.0
     

     






      

          
GC ORFID: 46089How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1235Glimmer Score: 

          
Start: 654957Stop: 655739

          
Length: 783


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1235 translation of PA1235Homolog Bit Score 512.0

          
Other Homologs:  t_PA0163 (ORF: BLASTX 204.0), t_PA3830 (ORF: BLASTX 202.0), t_PA0791 (ORF: BLASTX 187.0), psyr_15may02_Scaffold2_revised_gene3483 (ORF: BLASTX 184.0), t_PA1235 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCTGATCGACCTGCCTTCCACCCGTCCGGTCTTCGCCTATGCCCAGGATTATCTCCACGGCGAGCGCGTC 
GAGCTGCACCGGCATTCGCGCGCGCAATTGATCCATGCGCTCAGCGGGGTGGTCACGGTCGGCACCGCCGAG 
GGCACCTGGGTGGTGCCGCCGGGACGCGGTGTCTGGTTGCCGGCCGGTATCGAGCATGCCCTGCGTTTCGCC 
GGCCAGGTGCGCATGCGCACCTTGTTCATCGCCCCGCAGGCGCGCCACGACCTACCGCAGGACTGCCGGGTG 
GTGGACGTGCCGCCGTTGCTGCGGCAATTGATCGTCGCGGCGATGCGGATCGCGCCGGACTACCCGCCGGGC 
GGCCGCGACGAGCGGGTGATGGAGCTGATCCTCGATGAACTGCGGGTGCTGCCGATCCTCGCCCTGCACGTG 
CCACAGCCGGTCGATCGGCAACTGGCGGCGCTGTGCCGCAGCCTGCGCGCCGAGCCGGCCGCCGACTGGAGC 
CTGGGCGATGCCGCGCGTCGCCTGGGCGTCAGCCCGCGGACCCTGACTCGCGCCTTCCAGCGCGAAACCGGT 
CTCAGCTTCGTCCAGTGGCTGCGGCGCATGCGCCTGCTCGCCAGCCTCGATGCGCTGGCGGCAGGGCATTCG 
ATCCTCGAGGTCGCACTGGACCTCGGCTACGACAGCCAGAGCGCCTTCAGCGCCATGTTTCGCCGGACCCTG 
GGCGTTTCGCCGAGCCTCTATTTCGGCCGCGGCGCCGCCTACGGGGTGGCCGAGGGCGACTGA