ViewGene
Locus Name:
GeneID:
Location:

GeneID:898
TrivialName: PA14_23750
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23750
PAO1 Ortholog Locus:PA3121
Sequence Length:1425
Protein Length:474
Start: 2063572
Stop: 2064996
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06509.1|AE004736_6 (AE004736) 3-isopropylmalate dehydratase large subunit [Pseudomonas aeruginosa PAO1]
Identities = 474/474 (100%), Positives = 474/474 (100%)
Sequence:
ATGGCCGGCAAGACCCTCTACGACAAACTCTGGGACATGCACCTGGTCAAGCAGCGCGACGACGGTTCGGCG
CTGATCTACATCGACCGCCATATCCTGCACGAAGTGACCTCGCCGCAGGCCTTCGAGGGTCTTCGCCTGGCC
GGGCGCAAGCCGTGGCGGATCGACGCCAACATTGCCACCCCGGACCACAACGTGCCGACCACCCGCACCGAG
CGCAAGGGCGGCATCGCCGCCATCGCCGACGAGGTCTCGCGCCTGCAGGTGCAGACCCTCGACGAGAACTGC
GATGACTTCGGCATCACCGAATTCAAGATGAACGACGTGCGCCAGGGCATCGTCCATGTGGTCGGTCCGGAG
CAGGGCGCGACCCTCCCGGGGATGACCGTGGTCTGCGGCGACTCGCACACTTCCACCCACGGCGCCTTCGGC
GCGCTGGCCCACGGCATCGGCACTTCCGAGGTCGAGCATGTGCTGGCGACCCAGTGCCTGGTGGCGAAGAAG
ATGAAGAACATGCTGGTCAAGGTCGAAGGCAGGTTGCCGGCCGGCGTCACGGCGAAGGATATCGTCCTCGCG
GTGATCGGCAGGATCGGCACCGCCGGCGGCAACGGCCACGCCATCGAGTTCGCCGGCAGCGCCATCCGCGAC
CTGTCCATCGAAGGGCGGATGACCATCTGCAACATGTCGATCGAGGCGGGCGCCCGCGTCGGCCTGGTCGCC
GTCGACCAGAAGACCATCGACTACGTGAAGGGCCGGCCCTTCGCGCCGAGCGCCGAGCAATGGGACCAGGCC
GTCGCCTGCTGGCAGGGGCTGGTGTCGGACGCCGATGCCCGCTTCGATACCGTGGTCGAGCTGGACGCCGCG
CAGATCAAGCCGCAGGTCAGCTGGGGCACGTCGCCGGAAATGGTCCTGGCCGTGGACCAGAACGTGCCGGAC
CCGGCCCGCGAGAGCGACCCGATCAAGCGCGGTTCGATCGAGCGCGCCTTGAAGTACATGGGCCTGCGGCCG
AACCAGGCGATCACCGACATCCAGCTGGACCGGGTATTCATCGGTTCCTGCACCAACTCGCGGATCGAGGAC
CTGCGCGCTGCCGCCGAAGTGGCCAGGGGCCGCAAGGTCGCCGCGACCATCAAACAGGCGCTGGTGGTGCCG
GGTTCCGGGTTGGTCAAGGAGCAGGCCGAGAAGGAAGGCCTGGACCGGATCTTCATCGAGGCCGGCTTCGAA
TGGCGCGAGCCGGGCTGTTCCATGTGCCTGGCGATGAACCCGGACCGGCTGGAGAGCGGCGAACACTGCGCC
TCGACCTCCAACCGCAACTTCGAGGGCCGTCAGGGCGCCGGTGGCCGTACCCACCTGGTCAGCCCGGCGATG
GCCGCCGCCGCGGCCGTCAACGGCCGCTTCATCGATGTCCGCGAATTGCTCGCCTGA
Translation:
MAGKTLYDKLWDMHLVKQRDDGSALIYIDRHILHEVTSPQAFEGLRLAGRKPWRIDANIATPDHNVPTTRTE
RKGGIAAIADEVSRLQVQTLDENCDDFGITEFKMNDVRQGIVHVVGPEQGATLPGMTVVCGDSHTSTHGAFG
ALAHGIGTSEVEHVLATQCLVAKKMKNMLVKVEGRLPAGVTAKDIVLAVIGRIGTAGGNGHAIEFAGSAIRD
LSIEGRMTICNMSIEAGARVGLVAVDQKTIDYVKGRPFAPSAEQWDQAVACWQGLVSDADARFDTVVELDAA
QIKPQVSWGTSPEMVLAVDQNVPDPARESDPIKRGSIERALKYMGLRPNQAITDIQLDRVFIGSCTNSRIED
LRAAAEVARGRKVAATIKQALVVPGSGLVKEQAEKEGLDRIFIEAGFEWREPGCSMCLAMNPDRLESGEHCA
STSNRNFEGRQGAGGRTHLVSPAMAAAAAVNGRFIDVRELLA*
AnnotationID:907GeneID:898
AnnotatorUID: diggins
Modification Date/Time: 2005-04-13 07:07:33
Gene Name:leuC
Confidence Code:2
GeneProduct:3-isopropylmalate dehydratase large subunit
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0065,pfam00330
Secondary Functional Category(ies):
EC Number:4.2.1.33
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55690.1| (AE016863) 3-isopropylmalate dehydratase, large subunit
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 475

 Score =  847 bits (2188), Expect = 0.0
 Identities = 420/472 (88%), Positives = 447/472 (94%), Gaps = 1/472 (0%)

>gb|AAM38301.1| (AE011993) 3-isopropylmalate dehydratase large subunit [Xanthomonas
           axonopodis pv. citri str. 306]
          Length = 479

 Score =  821 bits (2120), Expect = 0.0
 Identities = 403/472 (85%), Positives = 434/472 (91%)

>gb|AAN78585.1|AE016755_85 (AE016755) 3-isopropylmalate dehydratase large subunit [Escherichia
           coli CFT073]
          Length = 466

 Score =  599 bits (1545), Expect = e-170
 Identities = 296/469 (63%), Positives = 364/469 (77%), Gaps = 6/469 (1%)






 
Structural Features:
COG0065, LeuC, 3-isopropylmalate dehydratase large subunit 
[Amino acid transport and metabolism]
CD-Length = 423 residues,  99.8% aligned
Score =  619 bits (1597), Expect = 3e-178
Identities = 267/475 (56%), Positives = 325/475 (68%), Gaps = 57/475 (12%)

pfam00330, Aconitase, Aconitase family (aconitate hydratase).
CD-Length = 465 residues, 100.0% aligned
Score =  541 bits (1394), Expect = 9e-155
Identities = 240/469 (51%), Positives = 299/469 (63%), Gaps = 13/469 (2%)








   
Genomic Context:






   
Comment:


















    ReferenceID:1799




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18941




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32404




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:898_cdd.html


    		




 
URL:

















    ReferenceID:33915




  
Author/Investigator(s):
        Tamakoshi M, Yamagishi A, Oshima T.





  
Title:
        The organization of the leuC, leuD and leuB genes of the extreme thermophile Thermus thermophilus.




  
PubMed:
        9813279


MedLine:
        




    
Source:
Gene. 1998 Nov 5;222(1):125-32.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9813279

















    ReferenceID:33916




  
Author/Investigator(s):
        Meinhardt F, Busskamp M, Wittchen KD.





  
Title:
        Cloning and sequencing of the leu C and npr M genes and a putative spo IV gene from Bacillus megaterium DSM319.




  
PubMed:
        7764969


MedLine:
        




    
Source:
Appl Microbiol Biotechnol. 1994 May;41(3):344-51.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7764969

















    ReferenceID:33917




  
Author/Investigator(s):
        Rosenthal ER, Calvo JM.





  
Title:
        The nucleotide sequence of leuC from Salmonella typhimurium.




  
PubMed:
        2190189


MedLine:
        




    
Source:
Nucleic Acids Res. 1990 May 25;18(10):3072.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2190189

















    ReferenceID:33918




  
Author/Investigator(s):
        Fultz PN, Kwoh DY, Kemper J.





  
Title:
        Salmonella typhimurium newD and Escherichia coli leuC genes code for a functional isopropylmalate isomerase in Salmonella typhimurium-Escherichia coli hybrids.




  
PubMed:
        374346


MedLine:
        




    
Source:
J Bacteriol. 1979 Mar;137(3):1253-62.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=374346

















    ReferenceID:33919




  
Author/Investigator(s):
        Nagahari K, Sakaguchi K.





  
Title:
        Cloning of Bacillus subtilis leucina A, B and C genes with Escherichia coli plasmids and expression of the leuC gene in E. coli.




  
PubMed:
        415224


MedLine:
        




    
Source:
Mol Gen Genet. 1978 Jan 17;158(3):263-70.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=415224









           
Homologs By Global Alignment 

           

       



     
Gene ID:898
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1598
                           PA3121_tr
                           translation of PA3121
                           474
                           99.99
                           99.99
                           0
                           2444.0
     

     
     
57566
                           gb|AAG06509.1|AE004736_6
                           (AE004736) 3-isopropylmalate dehydratase large subunit [Pseudomonas aeruginosa PAO1]
                           474
                           99.99
                           99.99
                           0
                           2444.0
     

     
     
57567
                           gb|AAO55690.1|
                           (AE016863) 3-isopropylmalate dehydratase, large subunit [Pseudomonas syringae pv. tomato str. DC3000]
                           476
                           88.23
                           93.90
                           3
                           2186.0
     

     
     
57568
                           gb|AAN67600.1|AE016389_8
                           (AE016781) 3-isopropylmalate dehydratase, large subunit [Pseudomonas putida KT2440]
                           478
                           86.19
                           92.67
                           5
                           2155.0
     

     
     
57569
                           gb|AAM42601.1|
                           (AE012450) 3-isopropylmalate dehydratase large subunit [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           479
                           84.96
                           90.81
                           5
                           2133.0
     

     






      

          
GC ORFID: 43900How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3121Glimmer Score: 

          
Start: 2890359Stop: 2888935

          
Length: 1425


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3121 translation of PA3121Homolog Bit Score 946.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene968 (ORF: BLASTX 845.0), t_PA3121 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCGGCAAGACCCTCTACGACAAACTCTGGGACATGCACCTGGTCAAGCAGCGCGACGACGGTTCGGCG 
CTGATCTACATCGACCGCCATATCCTGCACGAAGTGACCTCGCCGCAGGCCTTCGAGGGTCTTCGCCTGGCC 
GGGCGCAAGCCGTGGCGGATCGACGCCAACATTGCCACCCCGGACCACAACGTGCCGACCACCCGCACCGAG 
CGCAAGGGCGGCATCGCCGCCATCGCCGACGAGGTCTCGCGCCTGCAGGTGCAGACCCTCGACGAGAACTGC 
GATGACTTCGGCATCACCGAATTCAAGATGAACGACGTGCGCCAGGGCATCGTCCATGTGGTCGGTCCGGAG 
CAGGGCGCGACCCTCCCGGGGATGACCGTGGTCTGCGGCGACTCGCACACTTCCACCCACGGCGCCTTCGGC 
GCGCTGGCCCACGGCATCGGCACTTCCGAGGTCGAGCATGTGCTGGCGACCCAGTGCCTGGTGGCGAAGAAG 
ATGAAGAACATGCTGGTCAAGGTCGAAGGCAGGTTGCCGGCCGGCGTCACGGCGAAGGATATCGTCCTCGCG 
GTGATCGGCAGGATCGGCACCGCCGGCGGCAACGGCCACGCCATCGAGTTCGCCGGCAGCGCCATCCGCGAC 
CTGTCCATCGAAGGGCGGATGACCATCTGCAACATGTCGATCGAGGCGGGCGCCCGCGTCGGCCTGGTCGCC 
GTCGACCAGAAGACCATCGACTACGTGAAGGGCCGGCCCTTCGCGCCGAGCGCCGAGCAATGGGACCAGGCC 
GTCGCCTGCTGGCAGGGGCTGGTGTCGGACGCCGATGCCCGCTTCGATACCGTGGTCGAGCTGGACGCCGCG 
CAGATCAAGCCGCAGGTCAGCTGGGGCACGTCGCCGGAAATGGTCCTGGCCGTGGACCAGAACGTGCCGGAC 
CCGGCCCGCGAGAGCGACCCGATCAAGCGCGGTTCGATCGAGCGCGCCTTGAAGTACATGGGCCTGCGGCCG 
AACCAGGCGATCACCGACATCCAGCTGGACCGGGTATTCATCGGTTCCTGCACCAACTCGCGGATCGAGGAC 
CTGCGCGCTGCCGCCGAAGTGGCCAGGGGCCGCAAGGTCGCCGCGACCATCAAACAGGCGCTGGTGGTGCCG 
GGTTCCGGGTTGGTCAAGGAGCAGGCCGAGAAGGAAGGCCTGGACCGGATCTTCATCGAGGCCGGCTTCGAA 
TGGCGCGAGCCGGGCTGTTCCATGTGCCTGGCGATGAACCCGGACCGGCTGGAGAGCGGCGAACACTGCGCC 
TCGACCTCCAACCGCAACTTCGAGGGCCGTCAGGGCGCCGGTGGCCGTACCCACCTGGTCAGCCCGGCGATG 
GCCGCCGCCGCGGCCGTCAACGGCCGCTTCATCGATGTCCGCGAATTGCTCGCCTGA