ViewGene
Locus Name:
GeneID:
Location:

GeneID:4130
TrivialName: PA14_69980
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69980
PAO1 Ortholog Locus:PA5301
Sequence Length:549
Protein Length:182
Start: 6243784
Stop: 6243236
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08686.1|AE004943_2 (AE004943) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 182/182 (100%), Positives = 182/182 (100%)
Sequence:
TTGGACGTCGGTGCTCGTCTGCAAACCATCCGAAAGCTCAAAGGTCTTTCCCAGCGCGAACTCGCCAAACGG
GCGGGTGTCACCAACAGCACTATCTCGATGATCGAGAAAAACAGCGTGAGCCCTTCCATCAGTTCGCTGAAG
AAGGTGCTGGGCGGTATCCCCATGTCCCTGGTGGAGTTCTTCTCCCTGGACCTGGAGCAGGACAGCCATACC
CAGGTTGTCTACAAGGCAGACGAACTGATCGACATTTCCAGCGGCGCGGTGTCCATGCGCCTGGTGGGCAAG
GCGCACCCGAGCCGGGCGATCGCCTTCCTCGACGAAACCTACCCGCCGGGCTCCGACACCGGCGAGGAAATG
CTCAACCACGAAGGCGAGGAGGCCGGGGTGCTGGTCGACGGGCGCCTGGAACTGACCGTTGGCAGCGAGACC
TATGTGCTCGAGCGCGGCGACAGCTACTATTTCGAGAGCAACAAGCCGCACCGTTTTCGCAATCCCTACGAT
GTGCCGGCACGCTTGATCAGCGCCACCACGCCCGCAAATTTCTGA
Translation:
MDVGARLQTIRKLKGLSQRELAKRAGVTNSTISMIEKNSVSPSISSLKKVLGGIPMSLVEFFSLDLEQDSHT
QVVYKADELIDISSGAVSMRLVGKAHPSRAIAFLDETYPPGSDTGEEMLNHEGEEAGVLVDGRLELTVGSET
YVLERGDSYYFESNKPHRFRNPYDVPARLISATTPANF*
AnnotationID:4137GeneID:4130
AnnotatorUID: diggins
Modification Date/Time: 2005-03-16 12:12:11
Gene Name:
Confidence Code:3
GeneProduct:putative transcriptional regulator
Cell Localization:()
Synonyms:PA5301
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:cd00093,smart00530,pfam01381
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70833.1|AE016728_2 (AE016793) transcriptional regulator, Cro/CI family [Pseudomonas
           putida KT2440]
          Length = 182

 Score =  293 bits (749), Expect = 5e-79
 Identities = 144/182 (79%), Positives = 163/182 (89%)

>gb|AAN54333.1|AE015570_7 (AE015570) transcriptional regulator, putative [Shewanella
           oneidensis MR-1]
          Length = 182

 Score =  269 bits (688), Expect = 5e-72
 Identities = 126/182 (69%), Positives = 156/182 (85%)

>gb|AAN34097.1|AE014586_4 (AE014586) transcriptional regulator, putative [Brucella suis 1330]
          Length = 182

 Score =  191 bits (486), Expect = 1e-48
 Identities = 95/182 (52%), Positives = 130/182 (71%), Gaps = 2/182 (1%)








 
Structural Features:
cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
CD-Length = 58 residues, 100.0% aligned
Score = 58.6 bits (142), Expect = 4e-10
Identities = 27/58 (46%), Positives = 40/58 (68%)

smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins
CD-Length = 56 residues, 100.0% aligned
Score = 57.1 bits (138), Expect = 1e-09
Identities = 25/56 (44%), Positives = 38/56 (67%)

pfam01381, HTH_3, Helix-turn-helix.
CD-Length = 55 residues, 100.0% aligned
Score = 55.1 bits (133), Expect = 5e-09
Identities = 26/55 (47%), Positives = 36/55 (65%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15028




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25405




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34791




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4130_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4130
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6385
                           PA5301_tr
                           translation of PA5301
                           182
                           99.99
                           99.99
                           0
                           914.0
     

     
     
175160
                           gb|AAG08686.1|AE004943_2
                           (AE004943) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           182
                           99.45
                           99.99
                           0
                           912.0
     

     
     
175161
                           gb|AAN70833.1|AE016728_2
                           (AE016793) transcriptional regulator, Cro/CI family [Pseudomonas putida KT2440]
                           182
                           78.57
                           89.56
                           0
                           746.0
     

     
     
175162
                           gb|AAO53659.1|
                           (AE016856) DNA-binding protein [Pseudomonas syringae pv. tomato str. DC3000]
                           199
                           73.36
                           81.40
                           17
                           744.0
     

     
     
175164
                           gb|AAC45921.1|
                           (U94420) aldehyde dehydrogenase [Azotobacter vinelandii]
                           185
                           70.27
                           83.24
                           3
                           674.0
     

     






      

          
GC ORFID: 47132How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5301Glimmer Score: 

          
Start: 5507473Stop: 5506925

          
Length: 549


          
Start Codon: TTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5301 translation of PA5301Homolog Bit Score 356.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3160 (ORF: BLASTX 293.0), psyr_15may02_Scaffold1_revised_gene1150 (ORF: BLASTX 176.0), t_PA5301 (ORF: GLIMMER)

          
GC ORF Sequence

           
TTGGACGTCGGTGCTCGTCTGCAAACCATCCGAAAGCTCAAAGGTCTTTCCCAGCGCGAACTCGCCAAACGG 
GCGGGTGTCACCAACAGCACTATCTCGATGATCGAGAAAAACAGCGTGAGCCCTTCCATCAGTTCGCTGAAG 
AAGGTGCTGGGCGGTATCCCCATGTCCCTGGTGGAGTTCTTCTCCCTGGACCTGGAGCAGGACAGCCATACC 
CAGGTTGTCTACAAGGCAGACGAACTGATCGACATTTCCAGCGGCGCGGTGTCCATGCGCCTGGTGGGCAAG 
GCGCACCCGAGCCGGGCGATCGCCTTCCTCGACGAAACCTACCCGCCGGGCTCCGACACCGGCGAGGAAATG 
CTCAACCACGAAGGCGAGGAGGCCGGGGTGCTGGTCGACGGGCGCCTGGAACTGACCGTTGGCAGCGAGACC 
TATGTGCTCGAGCGCGGCGACAGCTACTATTTCGAGAGCAACAAGCCGCACCGTTTTCGCAATCCCTACGAT 
GTGCCGGCACGCTTGATCAGCGCCACCACGCCCGCAAATTTCTGA