ViewGene
Locus Name:
GeneID:
Location:

GeneID:3196
TrivialName: PA14_69440
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_69440
PAO1 Ortholog Locus:PA5259
Sequence Length:756
Protein Length:251
Start: 6193711
Stop: 6192956
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08644.1|AE004938_6 (AE004938) uroporphyrinogen-III synthetase [Pseudomonas aeruginosa PAO1]
Identities = 251/251 (100%), Positives = 251/251 (100%)
Sequence:
GTGAGCGGCTGGCGGCTCCTGCTGACGCGCCCCGACGAGGAGTGCGCGGCCCTGGCCGCCAGCCTCGGCGAG
GCTGGCGTCCATAGCAGTAGCCTGCCGCTGTTGGCGATCGATCCGCTGGAAGAAACCCCGGAGCAGCGTACG
CTGATGCTCGACCTGGACCGCTACTGCGCGGTGGTGGTGGTCAGCAAGCCGGCGGCGCGCCTGGGGCTGGAG
CGGCTCGACCGCTACTGGCCGCAGCCTCCGCAGCAGACCTGGTGCAGCGTCGGCGCGGCGACCGCGGCGATC
CTCGAGGCCTACGGCCTCGACGTAACCTACCCTGAACAGGGCGACGACAGCGAAGCGTTGCTGGCGCTGCCG
GCGTTCCAGGATTCCCTGCGCGTGCACGATCCGAAAGTGCTGATCATGCGCGGCGAAGGTGGCCGAGAATTC
CTCGCCGAGCGCCTGCGCGGCCAAGGCGTGCAGGTGGACTACCTGCCACTCTACCGGCGCCGGGCTCCGGAC
TATCCGGCCGGAGAGCTGCTGGCAAGGGTGCGGGCGGAACGCCTGAACGGCCTGGTGGTCAGCAGTGGACAG
GGTTTGCAAAATCTGTATCAGTTGGCGGCAGCCGATTGGCCCGAGATAGGCCGGTTGCCGCTGTTCGTACCC
AGCCCGCGGGTCGCCGAGATGGCGCGCGAACTGGGTGCGCAACGGGTGATTGATTGCCGGGGCGCGAGCGCG
CCGGCCTTGCTGGCGGCCCTGACGAGCGCCGCCTAG
Translation:
MSGWRLLLTRPDEECAALAASLGEAGVHSSSLPLLAIDPLEETPEQRTLMLDLDRYCAVVVVSKPAARLGLE
RLDRYWPQPPQQTWCSVGAATAAILEAYGLDVTYPEQGDDSEALLALPAFQDSLRVHDPKVLIMRGEGGREF
LAERLRGQGVQVDYLPLYRRRAPDYPAGELLARVRAERLNGLVVSSGQGLQNLYQLAAADWPEIGRLPLFVP
SPRVAEMARELGAQRVIDCRGASAPALLAALTSAA*
AnnotationID:3204GeneID:3196
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 14:02:23
Gene Name:hemD
Confidence Code:2
GeneProduct:uroporphyrinogen-III synthase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(8) Central intermediary metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1587
Secondary Functional Category(ies):biosynthesis of cofactors, prosthetic groups and carriers
EC Number:4.2.1.75
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53683.1| (AE016856) uroporphyrinogen-III synthetase [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 258

 Score =  304 bits (778), Expect = 4e-82
 Identities = 157/247 (63%), Positives = 184/247 (74%)

>gb|AAN65820.1|AE016210_8 (AE016774) uroporphyrinogen-III synthetase [Pseudomonas putida
           KT2440]
          Length = 255

 Score =  290 bits (742), Expect = 5e-78
 Identities = 154/251 (61%), Positives = 184/251 (73%)








 
Structural Features:
COG1587, HemD, Uroporphyrinogen-III synthase [Coenzyme metabolism]
CD-Length = 248 residues,  98.4% aligned
Score =  155 bits (392), Expect = 6e-39
Identities = 81/251 (32%), Positives = 111/251 (44%), Gaps = 10/251 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14761




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23537




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34821




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3196_cdd.html


    		




 
URL:

















    ReferenceID:35733




  
Author/Investigator(s):
        Mohr CD, Sonsteby SK, Deretic V.





  
Title:
        The Pseudomonas aeruginosa homologs of hemC and hemD are linked to the gene encoding the regulator of mucoidy AlgR.




  
PubMed:
        8159168


MedLine:
        




    
Source:
Mol Gen Genet. 1994 Jan;242(2):177-84.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8159168

















    ReferenceID:35736




  
Author/Investigator(s):
        Sasarman A, Nepveu A, Echelard Y, Dymetryszyn J, Drolet M, Goyer C.





  
Title:
        Molecular cloning and sequencing of the hemD gene of Escherichia coli K-12 and preliminary data on the Uro operon.




  
PubMed:
        3040684


MedLine:
        




    
Source:
J Bacteriol. 1987 Sep;169(9):4257-62.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3040684

















    ReferenceID:35737




  
Author/Investigator(s):
        Jordan PM, Mgbeje BI, Thomas SD, Alwan AF.





  
Title:
        Nucleotide sequence for the hemD gene of Escherichia coli encoding uroporphyrinogen III synthase and initial evidence for a hem operon.




  
PubMed:
        3277628


MedLine:
        




    
Source:
Biochem J. 1988 Jan 15;249(2):613-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3277628

















    ReferenceID:35738




  
Author/Investigator(s):
        Alefounder PR, Abell C, Battersby AR.





  
Title:
        The sequence of hemC, hemD and two additional E. coli genes.




  
PubMed:
        3054815


MedLine:
        




    
Source:
Nucleic Acids Res. 1988 Oct 25;16(20):9871.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3054815

















    ReferenceID:35741




  
Author/Investigator(s):
        Jordan PM, Mgbeje BI, Alwan AF, Thomas SD.





  
Title:
        Nucleotide sequence of hemD, the second gene in the hem operon of Escherichia coli K-12.




  
PubMed:
        3320969


MedLine:
        




    
Source:
Nucleic Acids Res. 1987 Dec 23;15(24):10583.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=3320969









           
Homologs By Global Alignment 

           

       



     
Gene ID:3196
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5158
                           PA5259_tr
                           translation of PA5259
                           251
                           99.99
                           99.99
                           0
                           1282.0
     

     
     
145020
                           gb|AAG08644.1|AE004938_6
                           (AE004938) uroporphyrinogen-III synthetase [Pseudomonas aeruginosa PAO1]
                           251
                           99.60
                           99.99
                           0
                           1279.0
     

     
     
145021
                           gb|AAA18908.1|
                           (M74844) uropprphyrinogen-III-synthase [Pseudomonas aeruginosa]
                           251
                           96.01
                           97.21
                           0
                           1234.0
     

     
     
145022
                           gb|AAO53683.1|
                           (AE016856) uroporphyrinogen-III synthetase [Pseudomonas syringae pv. tomato str. DC3000]
                           258
                           60.46
                           71.31
                           7
                           771.0
     

     
     
145023
                           gb|AAN65820.1|AE016210_8
                           (AE016774) uroporphyrinogen-III synthetase [Pseudomonas putida KT2440]
                           255
                           60.00
                           72.15
                           4
                           738.0
     

     






      

          
GC ORFID: 46198How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5259Glimmer Score: 

          
Start: 5457398Stop: 5456643

          
Length: 756


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA5259 translation of PA5259Homolog Bit Score 498.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene4067 (ORF: BLASTX 311.0), t_PA5259 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGAGCGGCTGGCGGCTCCTGCTGACGCGCCCCGACGAGGAGTGCGCGGCCCTGGCCGCCAGCCTCGGCGAG 
GCTGGCGTCCATAGCAGTAGCCTGCCGCTGTTGGCGATCGATCCGCTGGAAGAAACCCCGGAGCAGCGTACG 
CTGATGCTCGACCTGGACCGCTACTGCGCGGTGGTGGTGGTCAGCAAGCCGGCGGCGCGCCTGGGGCTGGAG 
CGGCTCGACCGCTACTGGCCGCAGCCTCCGCAGCAGACCTGGTGCAGCGTCGGCGCGGCGACCGCGGCGATC 
CTCGAGGCCTACGGCCTCGACGTAACCTACCCTGAACAGGGCGACGACAGCGAAGCGTTGCTGGCGCTGCCG 
GCGTTCCAGGATTCCCTGCGCGTGCACGATCCGAAAGTGCTGATCATGCGCGGCGAAGGTGGCCGAGAATTC 
CTCGCCGAGCGCCTGCGCGGCCAAGGCGTGCAGGTGGACTACCTGCCACTCTACCGGCGCCGGGCTCCGGAC 
TATCCGGCCGGAGAGCTGCTGGCAAGGGTGCGGGCGGAACGCCTGAACGGCCTGGTGGTCAGCAGTGGACAG 
GGTTTGCAAAATCTGTATCAGTTGGCGGCAGCCGATTGGCCCGAGATAGGCCGGTTGCCGCTGTTCGTACCC 
AGCCCGCGGGTCGCCGAGATGGCGCGCGAACTGGGTGCGCAACGGGTGATTGATTGCCGGGGCGCGAGCGCG 
CCGGCCTTGCTGGCGGCCCTGACGAGCGCCGCCTAG