ViewGene
Locus Name:
GeneID:
Location:

GeneID:4254
TrivialName: PA14_27130
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_27130
PAO1 Ortholog Locus:PA2859
Sequence Length:507
Protein Length:168
Start: 2356858
Stop: 2356352
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06247.1|AE004712_7 (AE004712) transcription elongation factor GreB [Pseudomonas aeruginosa PAO1]
Identities = 168/168 (100%), Positives = 168/168 (100%)
Sequence:
ATGAGTCGCTATCGTCCACCGCGCACCGCCGGCACCCCGCTGATCACTCCGGAGGGCGCCGCGCGGTTACGC
GCAGAGCTGCATGAACTCTGGCACGTGCGCCGTCCCCAGGTGACCCAGGCGGTCAGCGAAGCCGCCGCCCTC
GGCGATCGCTCGGAAAACGCCGAATACATCTACGGCAAGAAGATGCTGCGCGAGATCGACAGCCGCGTGCGC
TTCCTGCGCAAGCGCCTGGAGAACCTGAAAGTGGTCGGCGAGCGGCCGGCGGATCCGAACCGGGTGTACTTC
GGCGCCTGGGTGACCCTGGAAGACGAAGACGGCGAGCAGGCCCGCTATCGCATCGTCGGCCCCGACGAACTG
GACCTGCGCAACAACCAGATCAGCATCGACTCGCCGCTCGCCCGCGCACTGGTCGGCAAGGAGCTGGACGCC
GAGGTGCTGGTGCGCACCCCGGCCGGGGAAAAGCTCTGGTTCGTCGTCGAGATCGAGTATCCACCGGCGCCC
TGA
Translation:
MSRYRPPRTAGTPLITPEGAARLRAELHELWHVRRPQVTQAVSEAAALGDRSENAEYIYGKKMLREIDSRVR
FLRKRLENLKVVGERPADPNRVYFGAWVTLEDEDGEQARYRIVGPDELDLRNNQISIDSPLARALVGKELDA
EVLVRTPAGEKLWFVVEIEYPPAP*
AnnotationID:4260GeneID:4254
AnnotatorUID: diggins
Modification Date/Time: 2005-04-07 06:06:17
Gene Name:greB
Confidence Code:2
GeneProduct:transcription elongation factor GreB
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0782,pfam01272,pfam03449
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAM41835.1| (AE012368) transcription elongation factor and transcript cleavage
           [Xanthomonas campestris pv. campestris str. ATCC 33913]
          Length = 168

 Score =  189 bits (479), Expect = 8e-48
 Identities = 101/165 (61%), Positives = 118/165 (71%), Gaps = 1/165 (0%)

>gb|AAM87459.1|AE013996_4 (AE013996) transcription elongation factor [Yersinia pestis KIM]
          Length = 171

 Score =  186 bits (471), Expect = 6e-47
 Identities = 95/152 (62%), Positives = 112/152 (73%)

>gb|AAN57591.1|AE015894_11 (AE015894) transcription elongation factor GreB [Shewanella
           oneidensis MR-1]
          Length = 167

 Score =  180 bits (457), Expect = 3e-45
 Identities = 88/153 (57%), Positives = 112/153 (73%)






 
Structural Features:
COG0782, GreA, Transcription elongation factor [Transcription]
CD-Length = 151 residues, 100.0% aligned
Score =  146 bits (370), Expect = 1e-36
Identities = 68/152 (44%), Positives = 95/152 (62%), Gaps = 2/152 (1%)

pfam01272, GreA_GreB, Prokaryotic transcription elongation factor, GreA/GreB, 
C-terminal domain.
CD-Length = 78 residues,  93.6% aligned
Score = 86.1 bits (213), Expect = 2e-18
Identities = 37/73 (50%), Positives = 49/73 (67%), Gaps = 1/73 (1%)

pfam03449, GreA_GreB_N, Prokaryotic transcription elongation factor, 
GreA/GreB, N-terminal domain.
CD-Length = 74 residues,  97.3% aligned
Score = 85.0 bits (210), Expect = 5e-18
Identities = 31/72 (43%), Positives = 43/72 (59%)






   
Genomic Context:






   
Comment:


















    ReferenceID:8509




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25651




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36213




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4254_cdd.html


    		




 
URL:

















    ReferenceID:36405




  
Author/Investigator(s):
        Borukhov S, Sagitov V, Goldfarb A.





  
Title:
        Transcript cleavage factors from E. coli.




  
PubMed:
        8431948


MedLine:
        




    
Source:
Cell. 1993 Feb 12;72(3):459-66.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=93161419&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:4254
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6549
                           PA2859_tr
                           translation of PA2859
                           168
                           99.99
                           99.99
                           0
                           868.0
     

     
     
177470
                           gb|AAG06247.1|AE004712_7
                           (AE004712) transcription elongation factor GreB [Pseudomonas aeruginosa PAO1]
                           168
                           99.99
                           99.99
                           0
                           868.0
     

     
     
177471
                           gb|AAM41835.1|
                           (AE012368) transcription elongation factor and transcript cleavage [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           169
                           59.76
                           69.82
                           2
                           479.0
     

     
     
177473
                           gb|AAM37579.1|
                           (AE011913) transcription elongation factor and transcript cleavage [Xanthomonas axonopodis pv. citri str. 306]
                           169
                           59.17
                           68.63
                           2
                           470.0
     

     
     
177479
                           gb|AAK03534.1|
                           (AE006181) GreB [Pasteurella multocida]
                           168
                           54.16
                           65.47
                           10
                           434.0
     

     






      

          
GC ORFID: 47256How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2859Glimmer Score: 

          
Start: 2597068Stop: 2597574

          
Length: 507


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2859 translation of PA2859Homolog Bit Score 338.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1049 (ORF: BLASTX 178.0), t_PA2859 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGTCGCTATCGTCCACCGCGCACCGCCGGCACCCCGCTGATCACTCCGGAGGGCGCCGCGCGGTTACGC 
GCAGAGCTGCATGAACTCTGGCACGTGCGCCGTCCCCAGGTGACCCAGGCGGTCAGCGAAGCCGCCGCCCTC 
GGCGATCGCTCGGAAAACGCCGAATACATCTACGGCAAGAAGATGCTGCGCGAGATCGACAGCCGCGTGCGC 
TTCCTGCGCAAGCGCCTGGAGAACCTGAAAGTGGTCGGCGAGCGGCCGGCGGATCCGAACCGGGTGTACTTC 
GGCGCCTGGGTGACCCTGGAAGACGAAGACGGCGAGCAGGCCCGCTATCGCATCGTCGGCCCCGACGAACTG 
GACCTGCGCAACAACCAGATCAGCATCGACTCGCCGCTCGCCCGCGCACTGGTCGGCAAGGAGCTGGACGCC 
GAGGTGCTGGTGCGCACCCCGGCCGGGGAAAAGCTCTGGTTCGTCGTCGAGATCGAGTATCCACCGGCGCCC 
TGA