ViewGene
Locus Name:
GeneID:
Location:

GeneID:2416
TrivialName: PA14_08620
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08620
PAO1 Ortholog Locus:PA4280
Sequence Length:939
Protein Length:312
Start: 738405
Stop: 739343
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07668.1|AE004843_10 (AE004843) BirA bifunctional protein [Pseudomonas aeruginosa PAO1]
Identities = 308/312 (98%), Positives = 311/312 (99%)
Sequence:
ATGCAGACCTTGCTGAAACTACTTCAAGACGGGCGATTCCACTCCGGTGAGGAGTTGGGGGCGGTACTGGGC
ATCAGTCGCAGTGCAGTCTGGAAACGCTTGCAGCACCTGGAGGCTGAACATGGCCTGCAGTTCCACAAGGTG
CGTGGCCGGGGTTACCGCCTGGCGAGTCCCCTCAGTCTCCTGGATCCGCGGAAGATCGACAGCCTCTGGCCT
GTCGAGATCATGCCCACCGTCGATTCAACCAATAGCGAGGCCATGCGCAGGCTCGCGGCTGGAGCCTCGACG
CCTTTCGTTATCGTCGCCGAGCAGCAGACTGCCGGGCGTGGACGTCGCGGCCGAGCCTGGGTCAGTCCCTAT
GGAGAGAACCTCTATTATTCTCTGGCCATTACTGTCAGGGGGGGCGCTCGGGAGCTCGAAGGGTTGAGCCTG
GTTGTCGGTCTCGCGGTGCTCCGGGCCCTGGAGTCCTTGGGCGTCCGGGAAGCCGGGTTGAAGTGGCCGAAC
GACGTTCTGCAGGGAGGCAAGAAGATCGCCGGAATTCTCCTGGAGCTGAGTGGCGACCCCGCGGATCTGTGT
CATGTCGTTATCGGCATAGGGATCAACGTCAACATGAAGACCGCCACTGATATCGGCCAGCCTTGGACCTCC
CTGCGCGAAGCGCTGGGGGAGCTGGTGGATCGTTCGCGGCTGCTCTCTGCTCTCAATCGGCAGTTGGCCGAT
TATCTCGATAGGCATTCGCGCGAAGGCTTTGCTGCAAGTCGCGAGGAGTGGGAGTCCTGCAATCTCTGGCAG
GGTGCCCAGGTCATTCTCTCGACTGCCCTGAGTTCCATCGAGGGTCGCGTGTTGGGTGTCGATAGCCGAGGA
GCGCTGCGTCTCGAGGTGGATGGCGTGGAGCAGGGTTTCAGTGGAGGGGAGCTTAGTTTGAGGTTGCGTCAA
TGA
Translation:
MQTLLKLLQDGRFHSGEELGAVLGISRSAVWKRLQHLEAEHGLQFHKVRGRGYRLASPLSLLDPRKIDSLWP
VEIMPTVDSTNSEAMRRLAAGASTPFVIVAEQQTAGRGRRGRAWVSPYGENLYYSLAITVRGGARELEGLSL
VVGLAVLRALESLGVREAGLKWPNDVLQGGKKIAGILLELSGDPADLCHVVIGIGINVNMKTATDIGQPWTS
LREALGELVDRSRLLSALNRQLADYLDRHSREGFAASREEWESCNLWQGAQVILSTALSSIEGRVLGVDSRG
ALRLEVDGVEQGFSGGELSLRLRQ*
AnnotationID:2424GeneID:2416
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 18:06:41
Gene Name:birA
Confidence Code:2
GeneProduct:BirA bifunctional protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(4) Biosynthesis of cofactors, prosthetic groups and carriers
Alternate Gene Product Name:biotin-(acetyl-CoA carboxylase) ligase
Functional Category Confidence Code:5
COGs:COG0340,pfam03099,COG1654
Secondary Functional Category(ies):
EC Number:6.3.4.15
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN66067.1|AE016236_1 (AE016775) birA bifunctional protein [Pseudomonas putida KT2440]
          Length = 319

 Score =  393 bits (1010), Expect = e-109
 Identities = 195/316 (61%), Positives = 242/316 (76%), Gaps = 5/316 (1%)

>gb|AAO54152.1| (AE016858) birA bifunctional protein [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 319

 Score =  379 bits (973), Expect = e-104
 Identities = 190/316 (60%), Positives = 239/316 (75%), Gaps = 5/316 (1%)






 
Structural Features:
COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
CD-Length = 238 residues,  99.2% aligned
Score =  222 bits (568), Expect = 3e-59
Identities = 118/238 (49%), Positives = 142/238 (59%), Gaps = 6/238 (2%)

pfam03099, BPL_LipA_LipB, Biotin/lipoate A/B protein ligase family.
CD-Length = 119 residues,  95.8% aligned
Score = 91.2 bits (226), Expect = 2e-19
Identities = 52/129 (40%), Positives = 64/129 (49%), Gaps = 15/129 (11%)

COG1654, BirA, Biotin operon repressor [Transcription]
CD-Length = 79 residues,  92.4% aligned
Score = 85.4 bits (211), Expect = 9e-18
Identities = 35/74 (47%), Positives = 41/74 (55%), Gaps = 1/74 (1%)






   
Genomic Context:






   
Comment:


















    ReferenceID:4835




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21981




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36643




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2416_cdd.html


    		




 
URL:

















    ReferenceID:36788




  
Author/Investigator(s):
        Howard PK, Shaw J, Otsuka AJ.





  
Title:
        Nucleotide sequence of the birA gene encoding the biotin operon repressor and biotin holoenzyme synthetase functions of Escherichia coli.




  
PubMed:
        3899863


MedLine:
        




    
Source:
Gene. 1985;35(3):321-31.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3899863









           
Homologs By Global Alignment 

           

       



     
Gene ID:2416
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4067
                           PA4280_tr
                           translation of PA4280
                           312
                           98.71
                           99.67
                           0
                           1566.0
     

     
     
121989
                           gb|AAG07668.1|AE004843_10
                           (AE004843) BirA bifunctional protein [Pseudomonas aeruginosa PAO1]
                           312
                           98.71
                           99.67
                           0
                           1566.0
     

     
     
121990
                           gb|AAN66067.1|AE016236_1
                           (AE016775) birA bifunctional protein [Pseudomonas putida KT2440]
                           319
                           61.12
                           75.86
                           7
                           1014.0
     

     
     
121991
                           gb|AAO54152.1|
                           (AE016858) birA bifunctional protein [Pseudomonas syringae pv. tomato str. DC3000]
                           319
                           59.56
                           74.92
                           7
                           977.0
     

     
     
121992
                           dbj|BAC95933.1|
                           (AP005343) biotin-(acetyl-CoA carboxylase) ligase [Vibrio vulnificus YJ016]
                           325
                           41.53
                           59.07
                           16
                           598.0
     

     






      

          
GC ORFID: 45418How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4280Glimmer Score: 

          
Start: 4215535Stop: 4214597

          
Length: 939


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4280 translation of PA4280Homolog Bit Score 607.0

          
Other Homologs:  t_PA4280 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAGACCTTGCTGAAACTACTTCAAGACGGGCGATTCCACTCCGGTGAGGAGTTGGGGGCGGTACTGGGC 
ATCAGTCGCAGTGCAGTCTGGAAACGCTTGCAGCACCTGGAGGCTGAACATGGCCTGCAGTTCCACAAGGTG 
CGTGGCCGGGGTTACCGCCTGGCGAGTCCCCTCAGTCTCCTGGATCCGCGGAAGATCGACAGCCTCTGGCCT 
GTCGAGATCATGCCCACCGTCGATTCAACCAATAGCGAGGCCATGCGCAGGCTCGCGGCTGGAGCCTCGACG 
CCTTTCGTTATCGTCGCCGAGCAGCAGACTGCCGGGCGTGGACGTCGCGGCCGAGCCTGGGTCAGTCCCTAT 
GGAGAGAACCTCTATTATTCTCTGGCCATTACTGTCAGGGGGGGCGCTCGGGAGCTCGAAGGGTTGAGCCTG 
GTTGTCGGTCTCGCGGTGCTCCGGGCCCTGGAGTCCTTGGGCGTCCGGGAAGCCGGGTTGAAGTGGCCGAAC 
GACGTTCTGCAGGGAGGCAAGAAGATCGCCGGAATTCTCCTGGAGCTGAGTGGCGACCCCGCGGATCTGTGT 
CATGTCGTTATCGGCATAGGGATCAACGTCAACATGAAGACCGCCACTGATATCGGCCAGCCTTGGACCTCC 
CTGCGCGAAGCGCTGGGGGAGCTGGTGGATCGTTCGCGGCTGCTCTCTGCTCTCAATCGGCAGTTGGCCGAT 
TATCTCGATAGGCATTCGCGCGAAGGCTTTGCTGCAAGTCGCGAGGAGTGGGAGTCCTGCAATCTCTGGCAG 
GGTGCCCAGGTCATTCTCTCGACTGCCCTGAGTTCCATCGAGGGTCGCGTGTTGGGTGTCGATAGCCGAGGA 
GCGCTGCGTCTCGAGGTGGATGGCGTGGAGCAGGGTTTCAGTGGAGGGGAGCTTAGTTTGAGGTTGCGTCAA 
TGA