ViewGene
Locus Name:
GeneID:
Location:

GeneID:5149
TrivialName: PA14_28720
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_28720
PAO1 Ortholog Locus:PA2738
Sequence Length:303
Protein Length:100
Start: 2473859
Stop: 2474161
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06126.1|AE004702_3 (AE004702) integration host factor, alpha subunit [Pseudomonas aeruginosa PAO1]
Identities = 100/100 (100%), Positives = 100/100 (100%)
Sequence:
ATGGGGGCTCTGACGAAAGCTGAAATTGCGGAACGTCTGTACGAAGAGCTGGGCCTGAACAAACGGGAAGCC
AAGGAGTTGGTGGAGCTGTTCTTCGAAGAGATCCGCCAGGCGCTGGAGCACAACGAGCAGGTCAAGCTGTCC
GGTTTCGGCAACTTCGACCTGCGCGACAAGCGCCAGCGCCCCGGACGCAACCCGAAGACCGGTGAAGAAATC
CCGATCACGGCCCGCCGCGTTGTCACCTTTCGTCCAGGGCAGAAACTGAAGGCCAGGGTTGAGGCATATGCT
GGAACCAAGTCATAA
Translation:
MGALTKAEIAERLYEELGLNKREAKELVELFFEEIRQALEHNEQVKLSGFGNFDLRDKRQRPGRNPKTGEEI
PITARRVVTFRPGQKLKARVEAYAGTKS*
AnnotationID:5154GeneID:5149
AnnotatorUID: diggins
Modification Date/Time: 2005-04-05 07:07:33
Gene Name:himA
Confidence Code:1
GeneProduct:integration host factor, alpha subunit
Cell Localization:()
Synonyms:ihfA
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00216
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55895.1| (AE016864) integration host factor, alpha subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 100

 Score =  192 bits (487), Expect = 4e-49
 Identities = 97/100 (97%), Positives = 98/100 (98%)

>gb|AAN68083.1|AE016440_3 (AE016783) integration host factor, alpha subunit [Pseudomonas
          putida KT2440]
          Length = 100

 Score =  191 bits (484), Expect = 9e-49
 Identities = 96/99 (96%), Positives = 97/99 (97%)

>gb|AAM85478.1|AE013793_14 (AE013793) integration host factor (IHF), alpha subunit [Yersinia
          pestis KIM]
          Length = 98

 Score =  158 bits (400), Expect = 5e-39
 Identities = 76/92 (82%), Positives = 89/92 (96%)






 
Structural Features:
pfam00216, Bac_DNA_binding, Bacterial DNA-binding protein.
CD-Length = 90 residues, 100.0% aligned
Score =  108 bits (271), Expect = 2e-25
Identities = 45/90 (50%), Positives = 65/90 (72%)






   
Genomic Context:






   
Comment:


















    ReferenceID:10298




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27442




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36302




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5149_cdd.html


    		




 
URL:

















    ReferenceID:36368




  
Author/Investigator(s):
        Delic-Attree I, Toussaint B, Vignais PM.





  
Title:
        Cloning and sequence analyses of the genes coding for the integration host factor (IHF) and HU proteins of Pseudomonas aeruginosa.




  
PubMed:
        7867950


MedLine:
        




    
Source:
Gene. 1995 Feb 27;154(1):61-4.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7867950









           
Homologs By Global Alignment 

           

       



     
Gene ID:5149
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7557
                           PA2738_tr
                           translation of PA2738
                           100
                           99.99
                           99.99
                           0
                           504.0
     

     
     
194001
                           gb|AAG06126.1|AE004702_3
                           (AE004702) integration host factor, alpha subunit [Pseudomonas aeruginosa PAO1]
                           100
                           99.99
                           99.99
                           0
                           504.0
     

     
     
194002
                           gb|AAA65949.1|
                           (L35258) integration host factor alpha-subunit [Pseudomonas aeruginosa]
                           100
                           99.99
                           99.99
                           0
                           504.0
     

     
     
194003
                           gb|AAO55895.1|
                           (AE016864) integration host factor, alpha subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           100
                           97.00
                           98.00
                           0
                           487.0
     

     
     
194005
                           gb|AAB04060.1|
                           (U56904) IhfA [Pseudomonas putida]
                           100
                           96.00
                           97.00
                           0
                           483.0
     

     






      

          
GC ORFID: 48151How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2738Glimmer Score: 

          
Start: 2480067Stop: 2479765

          
Length: 303


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2738 translation of PA2738Homolog Bit Score 198.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1169 (ORF: BLASTX 192.0), t_PA2738 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGGGGCTCTGACGAAAGCTGAAATTGCGGAACGTCTGTACGAAGAGCTGGGCCTGAACAAACGGGAAGCC 
AAGGAGTTGGTGGAGCTGTTCTTCGAAGAGATCCGCCAGGCGCTGGAGCACAACGAGCAGGTCAAGCTGTCC 
GGTTTCGGCAACTTCGACCTGCGCGACAAGCGCCAGCGCCCCGGACGCAACCCGAAGACCGGTGAAGAAATC 
CCGATCACGGCCCGCCGCGTTGTCACCTTTCGTCCAGGGCAGAAACTGAAGGCCAGGGTTGAGGCATATGCT 
GGAACCAAGTCATAA