ViewGene
Locus Name:
GeneID:
Location:

GeneID:2054
TrivialName: PA14_24640
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_24640
PAO1 Ortholog Locus:PA3050
Sequence Length:1029
Protein Length:342
Start: 2153624
Stop: 2154652
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06438.1|AE004730_2 (AE004730) dihydroorotate dehydrogenase [Pseudomonas aeruginosa PAO1]
Identities = 340/342 (99%), Positives = 342/342 (100%)
Sequence:
ATGTACACCCTGGCCCGCCAGCTGCTGTTCAAACTGTCCCCGGAAACCTCCCACGAACTGTCCATCGACCTG
ATCGGGGCCGGCGGTCGCCTGGGCCTGAACCGCCTGCTGACGCCCGAGCCGGCCAGCCTGCCGGTCTCTGTG
CTGGGCCTGGAGTTTCCCAATCCGGTGGGGCTGGCCGCGGGCCTGGACAAGAACGGCGACGCCATCGACGGG
TTCGGCCAGCTCGGTTTCGGCTTCATCGAGATCGGCACCGTCACTCCGCGACCGCAGCCGGGCAATCCCAAG
CCGCGCCTGTTCCGCCTGCCGCAAGCCAACGCGATCATCAATCGCATGGGCTTCAACAACCACGGCGTCGAC
CACCTGCTGGCACGGGTGCGCGCGGCGAAGTATCGCGGCGTACTGGGGATCAACATCGGCAAGAACTTCGAT
ACCCCGGTGGAGCGCGCGGTCGACGACTACCTGATCTGCCTGGACAAGGTCTACGCCGACGCCAGCTACGTC
ACCGTCAACGTCAGCTCGCCGAACACGCCCGGCCTGCGCAGCCTGCAGTTCGGCGATTCGCTCAAGCAACTG
CTGGAGGCACTGCGCCAGCGCCAGGAAGCGCTGGCGCTGCGGCATGGCCGGCGGGTACCGCTGGCGATCAAG
ATCGCCCCGGACATGACCGACGAAGAGACCGCGCTGGTCGCCGCGGCGCTGGTCGAGGCGGGGATGGACGCG
GTGATCGCGACCAATACCACTCTCGGCCGCGAAGGCGTGGAAGGCCTGCCGCATGGCGACGAGGCGGGTGGC
CTGTCCGGCGCGCCGGTGCGGGAAAAGAGCACGCACACGGTGAAGGTGCTGGCCGGCGAGCTGGGCGGACGG
CTGCCGATCATCGCCGCCGGCGGTATCACCGAGGGCGCGCACGCGGCGGAGAAGATCGCCGCCGGGGCGAGC
CTGGTGCAGATCTATTCGGGTTTCATCTACAAGGGACCGGCGTTGATCCGCGAAGCGGTGGACGCCATCGCC
GCATTGCCGCGGCGGAATTGA
Translation:
MYTLARQLLFKLSPETSHELSIDLIGAGGRLGLNRLLTPEPASLPVSVLGLEFPNPVGLAAGLDKNGDAIDG
FGQLGFGFIEIGTVTPRPQPGNPKPRLFRLPQANAIINRMGFNNHGVDHLLARVRAAKYRGVLGINIGKNFD
TPVERAVDDYLICLDKVYADASYVTVNVSSPNTPGLRSLQFGDSLKQLLEALRQRQEALALRHGRRVPLAIK
IAPDMTDEETALVAAALVEAGMDAVIATNTTLGREGVEGLPHGDEAGGLSGAPVREKSTHTVKVLAGELGGR
LPIIAAGGITEGAHAAEKIAAGASLVQIYSGFIYKGPALIREAVDAIAALPRRN*
AnnotationID:2062GeneID:2054
AnnotatorUID: diggins
Modification Date/Time: 2005-04-12 07:07:02
Gene Name:pyrD
Confidence Code:2
GeneProduct:dihydroorotate dehydrogenase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(18) Nucleotide biosynthesis and metabolism
Alternate Gene Product Name:dihydroorotate oxidase
Functional Category Confidence Code:5
COGs:COG0167,pfam01180
Secondary Functional Category(ies):
EC Number:1.3.3.1
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67709.1|AE016402_1 (AE016781) dihydroorotate dehydrogenase [Pseudomonas putida KT2440]
          Length = 340

 Score =  590 bits (1521), Expect = e-168
 Identities = 298/340 (87%), Positives = 319/340 (93%)

>emb|CAD15321.1| (AL646065) PROBABLE DIHYDROOROTATE DEHYDROGENASE OXIDOREDUCTASE
           PROTEIN [Ralstonia solanacearum]
          Length = 344

 Score =  387 bits (995), Expect = e-107
 Identities = 197/339 (58%), Positives = 243/339 (71%), Gaps = 3/339 (0%)

>gb|AAC74031.1| (AE000196) dihydro-orotate dehydrogenase [Escherichia coli K12]
          Length = 336

 Score =  372 bits (955), Expect = e-102
 Identities = 189/334 (56%), Positives = 240/334 (71%)






 
Structural Features:
COG0167, PyrD, Dihydroorotate dehydrogenase 
[Nucleotide transport and metabolism]
CD-Length = 310 residues,  94.8% aligned
Score =  310 bits (797), Expect = 1e-85
Identities = 136/306 (44%), Positives = 180/306 (58%), Gaps = 19/306 (6%)

pfam01180, DHO_dh, Dihydroorotate dehydrogenase.
CD-Length = 293 residues,  99.7% aligned
Score =  298 bits (764), Expect = 8e-82
Identities = 141/302 (46%), Positives = 185/302 (61%), Gaps = 16/302 (5%)







   
Genomic Context:






   
Comment:


















    ReferenceID:4111




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21257




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32451




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2054_cdd.html


    		




 
URL:

















    ReferenceID:35949




  
Author/Investigator(s):
        Frick MM, Neuhard J, Kelln RA.





  
Title:
        Cloning, nucleotide sequence and regulation of the Salmonella typhimurium pyrD gene encoding dihydroorotate dehydrogenase.




  
PubMed:
        2269282


MedLine:
        




    
Source:
Eur J Biochem. 1990 Dec 12;194(2):573-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2269282

















    ReferenceID:35950




  
Author/Investigator(s):
        Larsen JN, Jensen KF.





  
Title:
        Nucleotide sequence of the pyrD gene of Escherichia coli and characterization of the flavoprotein dihydroorotate dehydrogenase.




  
PubMed:
        2992959


MedLine:
        




    
Source:
Eur J Biochem. 1985 Aug 15;151(1):59-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2992959









           
Homologs By Global Alignment 

           

       



     
Gene ID:2054
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3550
                           PA3050_tr
                           translation of PA3050
                           342
                           99.41
                           99.99
                           0
                           1722.0
     

     
     
109457
                           gb|AAG06438.1|AE004730_2
                           (AE004730) dihydroorotate dehydrogenase [Pseudomonas aeruginosa PAO1]
                           342
                           99.41
                           99.99
                           0
                           1722.0
     

     
     
109458
                           gb|AAN67709.1|AE016402_1
                           (AE016781) dihydroorotate dehydrogenase [Pseudomonas putida KT2440]
                           342
                           87.13
                           93.27
                           2
                           1521.0
     

     
     
109459
                           gb|AAO55823.1|
                           (AE016864) dihydroorotate dehydrogenase [Pseudomonas syringae pv. tomato str. DC3000]
                           343
                           86.58
                           91.83
                           1
                           1517.0
     

     
     
109460
                           gb|AAQ59486.1|
                           (AE016916) dihydroorotate oxidase [Chromobacterium violaceum ATCC 12472]
                           344
                           62.79
                           71.51
                           2
                           1044.0
     

     






      

          
GC ORFID: 45056How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3050Glimmer Score: 

          
Start: 2800305Stop: 2799277

          
Length: 1029


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3050 translation of PA3050Homolog Bit Score 667.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1079 (ORF: BLASTX 591.0), t_PA3050 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTACACCCTGGCCCGCCAGCTGCTGTTCAAACTGTCCCCGGAAACCTCCCACGAACTGTCCATCGACCTG 
ATCGGGGCCGGCGGTCGCCTGGGCCTGAACCGCCTGCTGACGCCCGAGCCGGCCAGCCTGCCGGTCTCTGTG 
CTGGGCCTGGAGTTTCCCAATCCGGTGGGGCTGGCCGCGGGCCTGGACAAGAACGGCGACGCCATCGACGGG 
TTCGGCCAGCTCGGTTTCGGCTTCATCGAGATCGGCACCGTCACTCCGCGACCGCAGCCGGGCAATCCCAAG 
CCGCGCCTGTTCCGCCTGCCGCAAGCCAACGCGATCATCAATCGCATGGGCTTCAACAACCACGGCGTCGAC 
CACCTGCTGGCACGGGTGCGCGCGGCGAAGTATCGCGGCGTACTGGGGATCAACATCGGCAAGAACTTCGAT 
ACCCCGGTGGAGCGCGCGGTCGACGACTACCTGATCTGCCTGGACAAGGTCTACGCCGACGCCAGCTACGTC 
ACCGTCAACGTCAGCTCGCCGAACACGCCCGGCCTGCGCAGCCTGCAGTTCGGCGATTCGCTCAAGCAACTG 
CTGGAGGCACTGCGCCAGCGCCAGGAAGCGCTGGCGCTGCGGCATGGCCGGCGGGTACCGCTGGCGATCAAG 
ATCGCCCCGGACATGACCGACGAAGAGACCGCGCTGGTCGCCGCGGCGCTGGTCGAGGCGGGGATGGACGCG 
GTGATCGCGACCAATACCACTCTCGGCCGCGAAGGCGTGGAAGGCCTGCCGCATGGCGACGAGGCGGGTGGC 
CTGTCCGGCGCGCCGGTGCGGGAAAAGAGCACGCACACGGTGAAGGTGCTGGCCGGCGAGCTGGGCGGACGG 
CTGCCGATCATCGCCGCCGGCGGTATCACCGAGGGCGCGCACGCGGCGGAGAAGATCGCCGCCGGGGCGAGC 
CTGGTGCAGATCTATTCGGGTTTCATCTACAAGGGACCGGCGTTGATCCGCGAAGCGGTGGACGCCATCGCC 
GCATTGCCGCGGCGGAATTGA