ViewGene
Locus Name:
GeneID:
Location:

GeneID:5435
TrivialName: PA14_28970
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_28970
PAO1 Ortholog Locus:
Sequence Length:540
Protein Length:179
Start: 2504847
Stop: 2505386
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05300.1|AE004617_4 (AE004617) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 69/149 (46%), Positives = 94/149 (63%)
Sequence:
ATGCTCCCTCCCGCCAGCCCCCATCCACCGCAAGAAGAACGGCCAGCGTGCCCGACGGCCTCGATAGGCAAA
CCCCGCGTCGAGCATGGAAGCCGGCTCCGGCAATGGCTTCGCCTGTGCCTGGGCAATGCCCAGGATGCCGCC
GATTTCGCCCACGGCACCTTCGTGCGCGTGTTCGCCTCGCGTAGCGCCGAGGCCCTCCGCGAACCGCGCTGC
TATCTGAGCGCGAGCGTCCGGGCGCTGATGAGCGACAGCTTCCGCCGCTGCGCCACCGAGCAGGCCTATCTG
GACAGCCTGGCCGCGCGGCCGGAGCCGCTGGACATTCCAGCGCAAACGCGACTGTCGATCCTGGAGACCCTG
ACTGCCATCGACCTCGCCCTCGACGGCATGGGCGAGCGTACCCGCCAGGTGTTCCTCGCGGTACAGCTCGAA
GGGCTTACCTACAGGTCGGCCGGCGAGCGCCTGGGCGTCTCGATGACCACCGTGGAGAACCACATGGTTCGC
GCCATGACCCGCTGCCTGTTGCTCTGCAAGGACTGA
Translation:
MLPPASPHPPQEERPACPTASIGKPRVEHGSRLRQWLRLCLGNAQDAADFAHGTFVRVFASRSAEALREPRC
YLSASVRALMSDSFRRCATEQAYLDSLAARPEPLDIPAQTRLSILETLTAIDLALDGMGERTRQVFLAVQLE
GLTYRSAGERLGVSMTTVENHMVRAMTRCLLLCKD*
AnnotationID:5440GeneID:5435
AnnotatorUID: danlee
Modification Date/Time: 2005-10-12 12:12:08
Gene Name:
Confidence Code:4
GeneProduct:hypothetical protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(14) Hypothetical, unclassified, unknown
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|67088449|gb|EAM07915.1|  Sigma-70 region 2 [Azotobacter vinelandii AvOP]
     Length=166
     Score =  191 bits (486),  Expect = 7e-48
     Identities = 96/152 (63%), Positives = 118/152 (77%), Gaps = 0/152 (0%)

gi|11351886|pir||E83406  probable sigma-70 factor, ECF subfamily PA1912 [Pseudomonas aeruginosa PAO1]
     Length=168
     Score =  128 bits (322),  Expect = 7e-29
     Identities = 69/149 (46%), Positives = 94/149 (63%), Gaps = 0/149 (0%)






 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription].
             CD-Length = 182 residues,  81.9% aligned
             Score = 79.4 bits (195), Expect = 3e-16

pfam04545, Sigma70_r4, Sigma-70, region 4. 
             CD-Length = 50 residues,  96.0% aligned
             Score = 41.8 bits (99), Expect = 5e-05






   
Genomic Context:






   
Comment:


















    ReferenceID:10868




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28016




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5435
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
196535
                           gb|AAN69178.1|AE016551_9
                           (AE016787) RNA polymerase sigma-70 factor, ECF subfamily [Pseudomonas putida KT2440]
                           183
                           40.98
                           54.64
                           17
                           292.0
     

     
     
7829
                           PA1912_tr
                           translation of PA1912
                           181
                           40.88
                           56.90
                           15
                           320.0
     

     
     
196531
                           gb|AAG05300.1|AE004617_4
                           (AE004617) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           181
                           40.88
                           56.90
                           15
                           320.0
     

     
     
196546
                           gb|AAN68694.1|AE016498_7
                           (AE016785) RNA polymerase sigma-70 factor, putative [Pseudomonas putida KT2440]
                           182
                           40.10
                           52.74
                           17
                           277.0
     

     
     
196534
                           emb|CAD84982.1|
                           (BX321859) probable sigma-70 factor, ECF subfamily [Nitrosomonas europaea ATCC 19718]
                           187
                           39.57
                           53.47
                           17
                           302.0
     

     






      

          
GC ORFID: 48437How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1912Glimmer Score: 

          
Start: 2449079Stop: 2448540

          
Length: 540


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1912 translation of PA1912Homolog Bit Score 128.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1362 (ORF: BLASTX 115.0), t_PA3899 (ORF: BLASTX 114.0), t_PA1912 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCTCCCTCCCGCCAGCCCCCATCCACCGCAAGAAGAACGGCCAGCGTGCCCGACGGCCTCGATAGGCAAA 
CCCCGCGTCGAGCATGGAAGCCGGCTCCGGCAATGGCTTCGCCTGTGCCTGGGCAATGCCCAGGATGCCGCC 
GATTTCGCCCACGGCACCTTCGTGCGCGTGTTCGCCTCGCGTAGCGCCGAGGCCCTCCGCGAACCGCGCTGC 
TATCTGAGCGCGAGCGTCCGGGCGCTGATGAGCGACAGCTTCCGCCGCTGCGCCACCGAGCAGGCCTATCTG 
GACAGCCTGGCCGCGCGGCCGGAGCCGCTGGACATTCCAGCGCAAACGCGACTGTCGATCCTGGAGACCCTG 
ACTGCCATCGACCTCGCCCTCGACGGCATGGGCGAGCGTACCCGCCAGGTGTTCCTCGCGGTACAGCTCGAA 
GGGCTTACCTACAGGTCGGCCGGCGAGCGCCTGGGCGTCTCGATGACCACCGTGGAGAACCACATGGTTCGC 
GCCATGACCCGCTGCCTGTTGCTCTGCAAGGACTGA