ViewGene
Locus Name:
GeneID:
Location:

GeneID:5191
TrivialName: PA14_23340
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23340
PAO1 Ortholog Locus:PA3161
Sequence Length:285
Protein Length:94
Start: 2025973
Stop: 2026257
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06549.1|AE004740_2 (AE004740) integration host factor beta subunit [Pseudomonas aeruginosa PAO1]
Identities = 94/94 (100%), Positives = 94/94 (100%)
Sequence:
ATGACCAAGTCGGAGTTGATCGAACGGATCGTTACCCATCAGGGGCAACTGTCCGCGAAGGATGTCGAGTTG
GCAATCAAGACCATGCTGGAGCAAATGTCCCAAGCCCTGGCGACTGGGGACCGGATCGAGATCCGTGGCTTC
GGCAGCTTTTCCTTGCACTACCGCGCCCCGCGCGTCGGTCGCAACCCCAAGACCGGGGAGTCGGTACGCCTC
GACGGCAAGTTCGTGCCGCACTTCAAGCCGGGCAAGGAGTTGCGGGATCGGGTCAACGAGCCGGAGTGA
Translation:
MTKSELIERIVTHQGQLSAKDVELAIKTMLEQMSQALATGDRIEIRGFGSFSLHYRAPRVGRNPKTGESVRL
DGKFVPHFKPGKELRDRVNEPE*
AnnotationID:5196GeneID:5191
AnnotatorUID: danlee
Modification Date/Time: 2005-10-13 16:04:56
Gene Name:himD
Confidence Code:1
GeneProduct:integration host factor beta subunit
Cell Localization:()
Synonyms:PA3161
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, smart00411,
Secondary Functional Category(ies):Transcription, RNA processing and degredation; Translation, post-translational modification, degredation
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:
pfam00216, Bac_DNA_binding, Bacterial DNA-binding protein..
             CD-Length = 90 residues, 100.0% aligned
             Score =  115 bits (290), Expect = 1e-27

smart00411, BHL, bacterial (prokaryotic) histone like domain; .
             CD-Length = 90 residues, 100.0% aligned
             Score =  113 bits (285), Expect = 4e-27

cd00591, HU_IHF, Integration host factor (IHF) and HU are small heterodimeric members of the 
DNABII protein family that bind and bend DNA.
             CD-Length = 87 residues, 100.0% aligned
             Score =  108 bits (271), Expect = 2e-25






   
Genomic Context:






   
Comment:


















    ReferenceID:10382




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27526




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5191
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
194621
                           gb|AAA65950.1|
                           (L35259) integration host factor beta subunit [Pseudomonas aeruginosa]
                           94
                           99.99
                           99.99
                           0
                           479.0
     

     
     
194609
                           gb|AAM27654.1|AF498408_2
                           (AF498408) HimD [Pseudomonas aeruginosa]
                           94
                           99.99
                           99.99
                           0
                           479.0
     

     
     
194610
                           gb|AAM27640.1|AF498407_2
                           (AF498407) HimD [Pseudomonas aeruginosa]
                           94
                           99.99
                           99.99
                           0
                           479.0
     

     
     
194611
                           gb|AAM27636.1|AF498406_2
                           (AF498406) HimD [Pseudomonas aeruginosa]
                           94
                           99.99
                           99.99
                           0
                           479.0
     

     
     
194612
                           gb|AAM27623.1|AF498405_2
                           (AF498405) HimD [Pseudomonas aeruginosa]
                           94
                           99.99
                           99.99
                           0
                           479.0
     

     






      

          
GC ORFID: 48193How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3161Glimmer Score: 

          
Start: 2927958Stop: 2927674

          
Length: 285


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3161 translation of PA3161Homolog Bit Score 189.0

          
Other Homologs:  psyr_15may02_Scaffold8_revised_gene7735 (ORF: BLASTX 177.0), t_PA3161 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCAAGTCGGAGTTGATCGAACGGATCGTTACCCATCAGGGGCAACTGTCCGCGAAGGATGTCGAGTTG 
GCAATCAAGACCATGCTGGAGCAAATGTCCCAAGCCCTGGCGACTGGGGACCGGATCGAGATCCGTGGCTTC 
GGCAGCTTTTCCTTGCACTACCGCGCCCCGCGCGTCGGTCGCAACCCCAAGACCGGGGAGTCGGTACGCCTC 
GACGGCAAGTTCGTGCCGCACTTCAAGCCGGGCAAGGAGTTGCGGGATCGGGTCAACGAGCCGGAGTGA